Lightrun
question-mark
Stuck on an issue?

Lightrun Answers was designed to reduce the constant googling that comes with debugging 3rd party libraries. It collects links to all the places you might be looking at while hunting down a tough bug.

And, if you’re still stuck at the end, we’re happy to hop on a call to see how we can help out.

Setting a custom Python environment does not work on first launch

See original GitHub issue

Description

I’m running JupyterLab 3.3.4-2 for the first time and trying to re-use my existing Python 3.10 environment installed via Homebrew but after selecting the Python interpreter and selecting Apply and restart, the dialog simply re-appears.

When starting JupyterLab, this dialog is shown:

image

There, I select the Python binary from my Python 3.10 installation with jupyterlab 3.4.4 installed and select Apply and restart. JupyterLab closes and re-opens and displays the same dialog again. The message stays the same:

Failed to find a compatible Python environment at the configured path “/Users/michi/Library/jupyterlab-desktop/jlab_server/bin/python”.

So maybe the configured path doesn’t get saved before re-opening the application?

Context

I’m running macOS 12.4 on an Apple M1 Mac. I’ve installed Python with the usual brew install python@3.10 and brew link python@3.10. I’m using a custom Homebrew prefix to workaround an issue in Homebrew.

michi ~$ brew --prefix
/Users/michi/opt/homebrew
michi ~$ sw_vers
ProductName:	macOS
ProductVersion:	12.4
BuildVersion:	21F79
michi ~$ brew --prefix
/Users/michi/opt/homebrew
michi ~$ python3 --version
Python 3.10.5
michi ~$ which python3
/Users/michi/opt/homebrew/bin/python3
michi ~$ python3 -m pip list | grep jupyterlab
jupyterlab           3.4.4
jupyterlab-pygments  0.2.2
jupyterlab-server    2.15.0
Troubleshoot Output 
michi ~$ jupyter troubleshoot
$PATH:
	/opt/local/bin
	/opt/local/sbin
	/Users/michi/opt/bin/native/Darwin
	/Users/michi/opt/bin
	/Users/michi/Library/Python/3.10/bin
	/Users/michi/.pyenv/shims
	/Users/michi/.cargo/bin
	/Users/michi/opt/homebrew/bin
	/Users/michi/opt/homebrew/sbin
	/Users/michi/.local/bin
	/usr/local/bin
	/usr/local/bin
	/usr/bin
	/bin
	/usr/sbin
	/sbin
	/Library/Apple/usr/bin

sys.path:
/Users/michi/opt/homebrew/bin
/Users/michi/opt/homebrew/Cellar/python@3.10/3.10.5/Frameworks/Python.framework/Versions/3.10/lib/python310.zip
/Users/michi/opt/homebrew/Cellar/python@3.10/3.10.5/Frameworks/Python.framework/Versions/3.10/lib/python3.10
/Users/michi/opt/homebrew/Cellar/python@3.10/3.10.5/Frameworks/Python.framework/Versions/3.10/lib/python3.10/lib-dynload
/Users/michi/Library/Python/3.10/lib/python/site-packages
/Users/michi/opt/homebrew/lib/python3.10/site-packages


sys.executable:
/Users/michi/opt/homebrew/opt/python@3.10/bin/python3.10


sys.version:
3.10.5 (main, Aug  6 2022, 11:45:06) [Clang 13.1.6 (clang-1316.0.21.2.5)]


platform.platform():
macOS-12.4-arm64-arm-64bit


which -a jupyter:
/Users/michi/Library/Python/3.10/bin/jupyter
/Users/michi/opt/homebrew/bin/jupyter


pip list:
Package              Version
-------------------- ------------------
anyio                3.6.1
appnope              0.1.3
archive              0.1.dev22+g17d3c8b
archive-project      0.1.dev6+ga80f2d0
argon2-cffi          21.3.0
argon2-cffi-bindings 21.2.0
arrow                1.2.2
asttokens            2.0.5
attrs                22.1.0
Babel                2.10.3
backcall             0.2.0
beautifulsoup4       4.11.1
binaryornot          0.4.4
bleach               5.0.1
certifi              2022.6.15
cffi                 1.15.1
chardet              5.0.0
charset-normalizer   2.1.0
click                8.1.3
cookiecutter         2.1.1
debugpy              1.6.2
decorator            5.1.1
defusedxml           0.7.1
dirwatch             0.1
entrypoints          0.4
executing            0.9.1
fastjsonschema       2.16.1
git-toxic            0.1
idna                 3.3
ipykernel            6.15.1
ipython              8.4.0
ipython-genutils     0.2.0
jedi                 0.18.1
Jinja2               3.1.2
jinja2-time          0.2.0
json5                0.9.9
jsonschema           4.9.1
jupyter-client       7.3.4
jupyter-core         4.11.1
jupyter-server       1.18.1
jupyterlab           3.4.4
jupyterlab-pygments  0.2.2
jupyterlab-server    2.15.0
MarkupSafe           2.1.1
matplotlib-inline    0.1.3
mistune              0.8.4
nbclassic            0.4.3
nbclient             0.6.6
nbconvert            6.5.0
nbformat             5.4.0
nest-asyncio         1.5.5
notebook             6.4.12
notebook-shim        0.1.0
packaging            21.3
pandocfilters        1.5.0
parso                0.8.3
pexpect              4.8.0
pickleshare          0.7.5
pip                  22.1.2
prometheus-client    0.14.1
prompt-toolkit       3.0.30
psutil               5.9.1
ptyprocess           0.7.0
pure-eval            0.2.2
pycparser            2.21
pyfswatch            0.1
Pygments             2.12.0
pyparsing            3.0.9
pyrsistent           0.18.1
python-dateutil      2.8.2
python-slugify       6.1.2
pytz                 2022.1
PyYAML               6.0
pyzmq                23.2.0
r                    0.1
requests             2.28.1
Send2Trash           1.8.0
setuptools           62.6.0
six                  1.16.0
sniffio              1.2.0
soupsieve            2.3.2.post1
stack-data           0.3.0
terminado            0.15.0
text-unidecode       1.3
tinycss2             1.1.1
toml                 0.10.2
tornado              6.2
traitlets            5.3.0
urllib3              1.26.11
wcwidth              0.2.5
webencodings         0.5.1
websocket-client     1.3.3
wheel                0.37.1
youtube-dl           2021.12.17

Browser Output (required for interface issues after loading) image
(I'm not sure if this helps)
Logs (required for issues with loading, server and startup)

I didn’t find jlab on my $PATH so I used this command instead:

michi ~$ /Users/michi/Downloads/JupyterLab.app/Contents/MacOS/JupyterLab --verbose 4

[2022-08-06 14:25:43.109] [info]  In production mode
[2022-08-06 14:25:43.126] [info]  Logging to file (/Users/michi/Library/Logs/jupyterlab-desktop/main.log) at 'false' level
[2022-08-06 14:25:43.306] [error] (node:25789) DeprecationWarning: findLogPath() is deprecated and will be removed in v5.
(Use `JupyterLab --trace-deprecation ...` to show where the warning was created)
[2022-08-06 14:25:43.834] [info]  feedURL https://update.electronjs.org/jupyterlab/jupyterlab-desktop/darwin-x64/3.3.4-2
[2022-08-06 14:25:43.835] [info]  requestHeaders { 'User-Agent': 'update-electron-app/2.0.1 (darwin: x64)' }
[2022-08-06 14:25:44.106] [error] Error: Command failed: ln -s /private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app/jlab /usr/local/bin/jlab
ln: /usr/local/bin/jlab: Permission denied

    at checkExecSyncError (node:child_process:835:11)
    at Object.execSync (node:child_process:909:15)
    at Object.execSync (node:electron/js2c/asar_bundle:5:12692)
    at setupJLabCommand (/private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app.asar/build/out/main/main.js:177:25)
    at /private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app.asar/build/out/main/main.js:192:9
    at processTicksAndRejections (node:internal/process/task_queues:96:5)
[2022-08-06 14:25:44.173] [info]  checking-for-update
[2022-08-06 14:25:45.311] [error] There was a problem updating the application
[2022-08-06 14:25:45.313] [error] Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 14:25:45.315] [info]  updater error
[2022-08-06 14:25:45.318] [info]  Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 14:35:43.896] [info]  checking-for-update
[2022-08-06 14:35:44.366] [error] There was a problem updating the application
[2022-08-06 14:35:44.376] [error] Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 14:35:44.379] [info]  updater error
[2022-08-06 14:35:44.379] [info]  Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 14:45:43.898] [info]  checking-for-update
[2022-08-06 14:45:44.358] [error] There was a problem updating the application
[2022-08-06 14:45:44.359] [error] Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 14:45:44.360] [info]  updater error
[2022-08-06 14:45:44.362] [info]  Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 14:55:43.938] [info]  checking-for-update
[2022-08-06 14:55:44.420] [error] There was a problem updating the application
[2022-08-06 14:55:44.424] [error] Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 14:55:44.432] [info]  updater error
[2022-08-06 14:55:44.432] [info]  Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 15:05:43.946] [info]  checking-for-update
[2022-08-06 15:05:44.422] [error] There was a problem updating the application
[2022-08-06 15:05:44.426] [error] Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 15:05:44.427] [info]  updater error
[2022-08-06 15:05:44.428] [info]  Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 15:15:36.346] [error] Error: JupyterLab did not save state successfully
    at /private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app.asar/build/out/main/app.js:233:46
[2022-08-06 15:15:38.547] [info]  In production mode
[2022-08-06 15:15:38.570] [info]  Logging to file (/Users/michi/Library/Logs/jupyterlab-desktop/main.log) at 'false' level
[2022-08-06 15:15:38.752] [error] (node:41425) DeprecationWarning: findLogPath() is deprecated and will be removed in v5.
(Use `JupyterLab --trace-deprecation ...` to show where the warning was created)
[2022-08-06 15:15:39.290] [info]  feedURL https://update.electronjs.org/jupyterlab/jupyterlab-desktop/darwin-x64/3.3.4-2
[2022-08-06 15:15:39.291] [info]  requestHeaders { 'User-Agent': 'update-electron-app/2.0.1 (darwin: x64)' }
[2022-08-06 15:15:39.545] [error] Error: Command failed: ln -s /private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app/jlab /usr/local/bin/jlab
ln: /usr/local/bin/jlab: Permission denied

    at checkExecSyncError (node:child_process:835:11)
    at Object.execSync (node:child_process:909:15)
    at Object.execSync (node:electron/js2c/asar_bundle:5:12692)
    at setupJLabCommand (/private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app.asar/build/out/main/main.js:177:25)
    at /private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app.asar/build/out/main/main.js:192:9
    at processTicksAndRejections (node:internal/process/task_queues:96:5)
[2022-08-06 15:15:39.604] [info]  checking-for-update
[2022-08-06 15:15:40.473] [error] There was a problem updating the application
[2022-08-06 15:15:40.475] [error] Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 15:15:40.477] [info]  updater error
[2022-08-06 15:15:40.479] [info]  Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 15:16:27.889] [error] Error: JupyterLab did not save state successfully
    at /private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app.asar/build/out/main/app.js:233:46
[2022-08-06 15:16:29.674] [info]  In production mode
[2022-08-06 15:16:29.690] [info]  Logging to file (/Users/michi/Library/Logs/jupyterlab-desktop/main.log) at 'false' level
[2022-08-06 15:16:29.867] [error] (node:41573) DeprecationWarning: findLogPath() is deprecated and will be removed in v5.
(Use `JupyterLab --trace-deprecation ...` to show where the warning was created)
[2022-08-06 15:16:30.301] [info]  feedURL https://update.electronjs.org/jupyterlab/jupyterlab-desktop/darwin-x64/3.3.4-2
[2022-08-06 15:16:30.302] [info]  requestHeaders { 'User-Agent': 'update-electron-app/2.0.1 (darwin: x64)' }
[2022-08-06 15:16:30.548] [error] Error: Command failed: ln -s /private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app/jlab /usr/local/bin/jlab
ln: /usr/local/bin/jlab: Permission denied

    at checkExecSyncError (node:child_process:835:11)
    at Object.execSync (node:child_process:909:15)
    at Object.execSync (node:electron/js2c/asar_bundle:5:12692)
    at setupJLabCommand (/private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app.asar/build/out/main/main.js:177:25)
    at /private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app.asar/build/out/main/main.js:192:9
    at processTicksAndRejections (node:internal/process/task_queues:96:5)
[2022-08-06 15:16:30.607] [info]  checking-for-update
[2022-08-06 15:16:31.245] [error] There was a problem updating the application
[2022-08-06 15:16:31.247] [error] Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 15:16:31.249] [info]  updater error
[2022-08-06 15:16:31.251] [info]  Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 15:26:30.343] [info]  checking-for-update
[2022-08-06 15:26:30.823] [error] There was a problem updating the application
[2022-08-06 15:26:30.845] [error] Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 15:26:30.852] [info]  updater error
[2022-08-06 15:26:30.852] [info]  Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 15:36:30.345] [info]  checking-for-update
[2022-08-06 15:36:30.841] [error] There was a problem updating the application
[2022-08-06 15:36:30.843] [error] Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 15:36:30.844] [info]  updater error
[2022-08-06 15:36:30.845] [info]  Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 15:46:30.327] [info]  checking-for-update
[2022-08-06 15:46:30.798] [error] There was a problem updating the application
[2022-08-06 15:46:30.800] [error] Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 15:46:30.802] [info]  updater error
[2022-08-06 15:46:30.802] [info]  Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 15:54:21.040] [info]  In production mode
[2022-08-06 15:54:21.063] [info]  Logging to file (/Users/michi/Library/Logs/jupyterlab-desktop/main.log) at 'false' level
[2022-08-06 15:54:21.249] [error] (node:44064) DeprecationWarning: findLogPath() is deprecated and will be removed in v5.
(Use `JupyterLab --trace-deprecation ...` to show where the warning was created)
[2022-08-06 15:54:21.804] [info]  feedURL https://update.electronjs.org/jupyterlab/jupyterlab-desktop/darwin-x64/3.3.4-2
[2022-08-06 15:54:21.805] [info]  requestHeaders { 'User-Agent': 'update-electron-app/2.0.1 (darwin: x64)' }
[2022-08-06 15:54:22.076] [error] Error: Command failed: ln -s /private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app/jlab /usr/local/bin/jlab
ln: /usr/local/bin/jlab: Permission denied

    at checkExecSyncError (node:child_process:835:11)
    at Object.execSync (node:child_process:909:15)
    at Object.execSync (node:electron/js2c/asar_bundle:5:12692)
    at setupJLabCommand (/private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app.asar/build/out/main/main.js:177:25)
    at /private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app.asar/build/out/main/main.js:192:9
    at processTicksAndRejections (node:internal/process/task_queues:96:5)
[2022-08-06 15:54:22.132] [info]  checking-for-update
[2022-08-06 15:54:31.988] [error] There was a problem updating the application
[2022-08-06 15:54:31.991] [error] Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 15:54:31.993] [info]  updater error
[2022-08-06 15:54:31.996] [info]  Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 15:56:10.377] [info]  In production mode
[2022-08-06 15:56:10.396] [info]  Logging to file (/Users/michi/Library/Logs/jupyterlab-desktop/main.log) at 'false' level
[2022-08-06 15:56:10.567] [error] (node:44295) DeprecationWarning: findLogPath() is deprecated and will be removed in v5.
(Use `JupyterLab --trace-deprecation ...` to show where the warning was created)
[2022-08-06 15:56:11.061] [info]  feedURL https://update.electronjs.org/jupyterlab/jupyterlab-desktop/darwin-x64/3.3.4-2
[2022-08-06 15:56:11.062] [info]  requestHeaders { 'User-Agent': 'update-electron-app/2.0.1 (darwin: x64)' }
[2022-08-06 15:56:11.315] [error] Error: Command failed: ln -s /private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app/jlab /usr/local/bin/jlab
ln: /usr/local/bin/jlab: Permission denied

    at checkExecSyncError (node:child_process:835:11)
    at Object.execSync (node:child_process:909:15)
    at Object.execSync (node:electron/js2c/asar_bundle:5:12692)
    at setupJLabCommand (/private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app.asar/build/out/main/main.js:177:25)
    at /private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app.asar/build/out/main/main.js:192:9
    at processTicksAndRejections (node:internal/process/task_queues:96:5)
[2022-08-06 15:56:11.363] [info]  checking-for-update
[2022-08-06 15:56:14.124] [error] There was a problem updating the application
[2022-08-06 15:56:14.126] [error] Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 15:56:14.128] [info]  updater error
[2022-08-06 15:56:14.130] [info]  Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 16:00:06.451] [info]  In production mode
[2022-08-06 16:00:06.468] [info]  Logging to file (/Users/michi/Library/Logs/jupyterlab-desktop/main.log) at 'false' level
[2022-08-06 16:00:06.652] [error] (node:44553) DeprecationWarning: findLogPath() is deprecated and will be removed in v5.
(Use `JupyterLab --trace-deprecation ...` to show where the warning was created)
[2022-08-06 16:00:07.108] [info]  feedURL https://update.electronjs.org/jupyterlab/jupyterlab-desktop/darwin-x64/3.3.4-2
[2022-08-06 16:00:07.109] [info]  requestHeaders { 'User-Agent': 'update-electron-app/2.0.1 (darwin: x64)' }
[2022-08-06 16:00:07.359] [error] Error: Command failed: ln -s /private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app/jlab /usr/local/bin/jlab
ln: /usr/local/bin/jlab: Permission denied

    at checkExecSyncError (node:child_process:835:11)
    at Object.execSync (node:child_process:909:15)
    at Object.execSync (node:electron/js2c/asar_bundle:5:12692)
    at setupJLabCommand (/private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app.asar/build/out/main/main.js:177:25)
    at /private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app.asar/build/out/main/main.js:192:9
    at processTicksAndRejections (node:internal/process/task_queues:96:5)
[2022-08-06 16:00:07.456] [info]  checking-for-update
[2022-08-06 16:00:10.221] [error] There was a problem updating the application
[2022-08-06 16:00:10.222] [error] Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 16:00:10.225] [info]  updater error
[2022-08-06 16:00:10.227] [info]  Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 16:01:57.594] [info]  In production mode
[2022-08-06 16:01:57.612] [info]  Logging to file (/Users/michi/Library/Logs/jupyterlab-desktop/main.log) at 'false' level
[2022-08-06 16:01:57.791] [error] (node:44745) DeprecationWarning: findLogPath() is deprecated and will be removed in v5.
(Use `JupyterLab --trace-deprecation ...` to show where the warning was created)
[2022-08-06 16:01:58.238] [info]  feedURL https://update.electronjs.org/jupyterlab/jupyterlab-desktop/darwin-x64/3.3.4-2
[2022-08-06 16:01:58.239] [info]  requestHeaders { 'User-Agent': 'update-electron-app/2.0.1 (darwin: x64)' }
[2022-08-06 16:01:58.490] [error] Error: Command failed: ln -s /private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app/jlab /usr/local/bin/jlab
ln: /usr/local/bin/jlab: Permission denied

    at checkExecSyncError (node:child_process:835:11)
    at Object.execSync (node:child_process:909:15)
    at Object.execSync (node:electron/js2c/asar_bundle:5:12692)
    at setupJLabCommand (/private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app.asar/build/out/main/main.js:177:25)
    at /private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app.asar/build/out/main/main.js:192:9
    at processTicksAndRejections (node:internal/process/task_queues:96:5)
[2022-08-06 16:01:58.583] [info]  checking-for-update
[2022-08-06 16:02:01.292] [error] There was a problem updating the application
[2022-08-06 16:02:01.294] [error] Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 16:02:01.297] [info]  updater error
[2022-08-06 16:02:01.299] [info]  Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 16:07:58.620] [info]  In production mode
[2022-08-06 16:07:58.643] [info]  Logging to file (/Users/michi/Library/Logs/jupyterlab-desktop/main.log) at 'false' level
[2022-08-06 16:07:58.831] [error] (node:45144) DeprecationWarning: findLogPath() is deprecated and will be removed in v5.
(Use `JupyterLab --trace-deprecation ...` to show where the warning was created)
[2022-08-06 16:07:59.398] [info]  feedURL https://update.electronjs.org/jupyterlab/jupyterlab-desktop/darwin-x64/3.3.4-2
[2022-08-06 16:07:59.399] [info]  requestHeaders { 'User-Agent': 'update-electron-app/2.0.1 (darwin: x64)' }
[2022-08-06 16:07:59.652] [error] Error: Command failed: ln -s /private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app/jlab /usr/local/bin/jlab
ln: /usr/local/bin/jlab: Permission denied

    at checkExecSyncError (node:child_process:835:11)
    at Object.execSync (node:child_process:909:15)
    at Object.execSync (node:electron/js2c/asar_bundle:5:12692)
    at setupJLabCommand (/private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app.asar/build/out/main/main.js:177:25)
    at /private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app.asar/build/out/main/main.js:192:9
    at processTicksAndRejections (node:internal/process/task_queues:96:5)
[2022-08-06 16:07:59.740] [info]  checking-for-update
[2022-08-06 16:08:02.557] [error] There was a problem updating the application
[2022-08-06 16:08:02.559] [error] Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 16:08:02.561] [info]  updater error
[2022-08-06 16:08:02.563] [info]  Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 16:08:45.344] [info]  In production mode
[2022-08-06 16:08:45.361] [info]  Logging to file (/Users/michi/Library/Logs/jupyterlab-desktop/main.log) at 'false' level
[2022-08-06 16:08:45.536] [error] (node:45299) DeprecationWarning: findLogPath() is deprecated and will be removed in v5.
(Use `JupyterLab --trace-deprecation ...` to show where the warning was created)
[2022-08-06 16:08:46.012] [info]  feedURL https://update.electronjs.org/jupyterlab/jupyterlab-desktop/darwin-x64/3.3.4-2
[2022-08-06 16:08:46.012] [info]  requestHeaders { 'User-Agent': 'update-electron-app/2.0.1 (darwin: x64)' }
[2022-08-06 16:08:46.336] [error] Error: Command failed: ln -s /private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app/jlab /usr/local/bin/jlab
ln: /usr/local/bin/jlab: Permission denied

    at checkExecSyncError (node:child_process:835:11)
    at Object.execSync (node:child_process:909:15)
    at Object.execSync (node:electron/js2c/asar_bundle:5:12692)
    at setupJLabCommand (/private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app.asar/build/out/main/main.js:177:25)
    at /private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app.asar/build/out/main/main.js:192:9
    at processTicksAndRejections (node:internal/process/task_queues:96:5)
[2022-08-06 16:08:46.447] [info]  checking-for-update
[2022-08-06 16:08:49.292] [error] There was a problem updating the application
[2022-08-06 16:08:49.295] [error] Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 16:08:49.298] [info]  updater error
[2022-08-06 16:08:49.300] [info]  Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 16:09:33.565] [info]  In production mode
[2022-08-06 16:09:33.583] [info]  Logging to file (/Users/michi/Library/Logs/jupyterlab-desktop/main.log) at 'false' level
[2022-08-06 16:09:33.771] [error] (node:45613) DeprecationWarning: findLogPath() is deprecated and will be removed in v5.
(Use `JupyterLab --trace-deprecation ...` to show where the warning was created)
[2022-08-06 16:09:34.287] [info]  feedURL https://update.electronjs.org/jupyterlab/jupyterlab-desktop/darwin-x64/3.3.4-2
[2022-08-06 16:09:34.288] [info]  requestHeaders { 'User-Agent': 'update-electron-app/2.0.1 (darwin: x64)' }
[2022-08-06 16:09:34.569] [error] Error: Command failed: ln -s /private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app/jlab /usr/local/bin/jlab
ln: /usr/local/bin/jlab: Permission denied

    at checkExecSyncError (node:child_process:835:11)
    at Object.execSync (node:child_process:909:15)
    at Object.execSync (node:electron/js2c/asar_bundle:5:12692)
    at setupJLabCommand (/private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app.asar/build/out/main/main.js:177:25)
    at /private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app.asar/build/out/main/main.js:192:9
    at processTicksAndRejections (node:internal/process/task_queues:96:5)
[2022-08-06 16:09:34.685] [info]  checking-for-update
[2022-08-06 16:09:35.402] [error] There was a problem updating the application
[2022-08-06 16:09:35.404] [error] Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 16:09:35.406] [info]  updater error
[2022-08-06 16:09:35.410] [info]  Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 16:14:35.712] [error] Error: JupyterLab did not save state successfully
    at /private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app.asar/build/out/main/app.js:233:46
[2022-08-06 16:14:37.502] [info]  In production mode
[2022-08-06 16:14:37.518] [info]  Logging to file (/Users/michi/Library/Logs/jupyterlab-desktop/main.log) at 'false' level
[2022-08-06 16:14:37.691] [error] (node:46015) DeprecationWarning: findLogPath() is deprecated and will be removed in v5.
(Use `JupyterLab --trace-deprecation ...` to show where the warning was created)
[2022-08-06 16:14:38.184] [info]  feedURL https://update.electronjs.org/jupyterlab/jupyterlab-desktop/darwin-x64/3.3.4-2
[2022-08-06 16:14:38.185] [info]  requestHeaders { 'User-Agent': 'update-electron-app/2.0.1 (darwin: x64)' }
[2022-08-06 16:14:38.421] [error] Error: Command failed: ln -s /private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app/jlab /usr/local/bin/jlab
ln: /usr/local/bin/jlab: Permission denied

    at checkExecSyncError (node:child_process:835:11)
    at Object.execSync (node:child_process:909:15)
    at Object.execSync (node:electron/js2c/asar_bundle:5:12692)
    at setupJLabCommand (/private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app.asar/build/out/main/main.js:177:25)
    at /private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app.asar/build/out/main/main.js:192:9
    at processTicksAndRejections (node:internal/process/task_queues:96:5)
[2022-08-06 16:14:38.489] [info]  checking-for-update
[2022-08-06 16:14:39.178] [error] There was a problem updating the application
[2022-08-06 16:14:39.179] [error] Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 16:14:39.181] [info]  updater error
[2022-08-06 16:14:39.184] [info]  Error: Cannot update while running on a read-only volume. The application is on a read-only volume. Please move the application and try again. If you're on macOS Sierra or later, you'll need to move the application out of the Downloads directory. See https://github.com/Squirrel/Squirrel.Mac/issues/182 for more information.
[2022-08-06 16:14:53.222] [error] Error: JupyterLab did not save state successfully
    at /private/var/folders/fq/2y7p86gs1qb98jp_cq5n90f80000gp/T/AppTranslocation/63B98877-0DD9-450F-B5EF-AB9C79CA8387/d/JupyterLab.app/Contents/Resources/app.asar/build/out/main/app.js:233:46
[2022-08-06 16:15:37.269] [info]  In production mode
[2022-08-06 16:15:37.290] [info]  Logging to file (/Users/michi/Library/Logs/jupyterlab-desktop/main.log) at 'false' level
[2022-08-06 16:15:37.543] [error] (node:46160) DeprecationWarning: findLogPath() is deprecated and will be removed in v5.
(Use `JupyterLab --trace-deprecation ...` to show where the warning was created)
[2022-08-06 16:15:37.983] [info]  feedURL https://update.electronjs.org/jupyterlab/jupyterlab-desktop/darwin-x64/3.3.4-2
[2022-08-06 16:15:37.985] [info]  requestHeaders { 'User-Agent': 'update-electron-app/2.0.1 (darwin: x64)' }
[2022-08-06 16:15:38.129] [error] Error: Command failed: ln -s /Users/michi/Downloads/JupyterLab.app/Contents/Resources/app/jlab /usr/local/bin/jlab
ln: /usr/local/bin/jlab: Permission denied

    at checkExecSyncError (node:child_process:835:11)
    at Object.execSync (node:child_process:909:15)
    at Object.execSync (node:electron/js2c/asar_bundle:5:12692)
    at setupJLabCommand (/Users/michi/Downloads/JupyterLab.app/Contents/Resources/app.asar/build/out/main/main.js:177:25)
    at /Users/michi/Downloads/JupyterLab.app/Contents/Resources/app.asar/build/out/main/main.js:192:9
    at processTicksAndRejections (node:internal/process/task_queues:96:5)
[2022-08-06 16:15:38.193] [info]  checking-for-update
[2022-08-06 16:15:39.110] [info]  update-not-available
[2022-08-06 16:16:33.827] [error] Error: JupyterLab did not save state successfully
    at /Users/michi/Downloads/JupyterLab.app/Contents/Resources/app.asar/build/out/main/app.js:233:46

Issue Analytics

  • State:open
  • Created a year ago
  • Comments:7 (3 by maintainers)

github_iconTop GitHub Comments

1reaction
mbektascommented, Dec 10, 2022

@Feuermurmel this should be fixed now with v3.5.1-1. could you test and update the issue?

0reactions
mbektascommented, Dec 25, 2022

@Feuermurmel looks like JupyterLab Server is failing to launch from your custom environment. We will be improving the error handling for the case you are running into. Can you check couple of things:

  1. Do you happen to have any spaces in the custom environment path? That is not supported at the moment but I am working on a fix.

  2. Can you check if there are any relevant logs related to server launch in ~/Library/Logs/jupyterlab-desktop/main.log?

  3. Based on your logs above, I am noticing that the application is not in /Applications directory. If you use dmg installer, then app should have been installed there. Any particular reason for this?

  4. To get out of this state you can remove pythonPath field or set to empty string in jupyterlab-desktop-data file (in ~/Library/jupyterlab-desktop/jupyterlab-desktop-data). It will reset Python environment to the bundled one.

  5. Can you manually launch the server from a terminal after activating your custom environment and see if there are any errors? using the command:

python -m jupyterlab --no-browser --expose-app-in-browser --JupyterApp.config_file_name="" --ServerApp.port=8888 --ServerApp.password="" --ServerApp.allow_origin="*" --ContentsManager.allow_hidden=True
Read more comments on GitHub >

github_iconTop Results From Across the Web

No results found

github_iconTop Related Medium Post

No results found

github_iconTop Related StackOverflow Question

No results found

github_iconTroubleshoot Live Code

Lightrun enables developers to add logs, metrics and snapshots to live code - no restarts or redeploys required.
Start Free

github_iconTop Related Reddit Thread

No results found

github_iconTop Related Hackernoon Post

No results found

github_iconTop Related Tweet

No results found

github_iconTop Related Dev.to Post

No results found

github_iconTop Related Hashnode Post

No results found
Previous page

Intake Integration

Next page

Save and Export Notebook As... doesn't work!