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MyST markdown lists are not displayed correctly in Jupyterlab markdown cells macOS Monterrey/Sonoma #1039

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tguilment opened this issue Mar 28, 2024 · 4 comments
Closed

MyST markdown lists are not displayed correctly in Jupyterlab markdown cells macOS Monterrey/Sonoma #1039

tguilment opened this issue Mar 28, 2024 · 4 comments
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@agoose77
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bug Something isn't working

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@tguilment
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tguilment commented Mar 28, 2024 •
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Hi, I recently discovered mystmd and I am very grateful for it!
I need your help to fix some list markdown problems.

Problem
My markdown cells don't display the list correctly after jupyterlab-myst extension is enabled. Each list is displayed as a checklist (see below the picture attached presents the markdown cell and the same markdown cell after execution for 2 cases of the list)
List_issu

Reproducible steps
Tested on Mac OS Monterrey and Sonoma, with JupyterLab Desktop and also from the jupyter lab command line inside Brave or Safari.
Requirements: mamba installed, npm installed with Homebrew

Create a Local Python virtual environment:
% mamba create -p ./myst-env pip ipykernel jupyterlab

Activate it
% mamba activate ./myst-env

Add the kernel to jupyter lab:
% python -m ipykernel install --user --name=myst-env

Install nodejs
% mamba install nodejs

Install jupyterlab-myst and mystmd
% mamba install jupyterlab-myst mystmd

Start Jupyterlab
% jupyter lab

Go to the Jupyterlab extension and look for Jupyterlab-myst, then ensure that the extension is installed and enabled.
Restart Jupyterlab as well as refresh your browser (tested with Safari and Brave).

Expected behavior
I expect to see the regular markdown list as presented in https://mystmd.org/guide/commonmark#lists

Additional information
As I metionned, I had the same behavior adding the Jupyterlab-myst extension to the Jupyterlab Desktop app.
% npm --version
10.1.0

% node --version
v20.9.0

% jupyter labextension list
JupyterLab v4.1.5
/Users/thomas/.../myst-env/share/jupyter/labextensions
        jupyterlab-myst v2.3.1 enabled OK (python, jupyterlab_myst)
        jupyterlab_pygments v0.3.0 enabled OK (python, jupyterlab_pygments)

% mamba list

# packages in environment at /Users/thomas/.../myst-env:
#
# Name                    Version                   Build  Channel
anyio                     4.3.0              pyhd8ed1ab_0    conda-forge
appnope                   0.1.4              pyhd8ed1ab_0    conda-forge
argon2-cffi               23.1.0             pyhd8ed1ab_0    conda-forge
argon2-cffi-bindings      21.2.0          py312h02f2b3b_4    conda-forge
arrow                     1.3.0              pyhd8ed1ab_0    conda-forge
asttokens                 2.4.1              pyhd8ed1ab_0    conda-forge
async-lru                 2.0.4              pyhd8ed1ab_0    conda-forge
attrs                     23.2.0             pyh71513ae_0    conda-forge
babel                     2.14.0             pyhd8ed1ab_0    conda-forge
beautifulsoup4            4.12.3             pyha770c72_0    conda-forge
bleach                    6.1.0              pyhd8ed1ab_0    conda-forge
brotli-python             1.1.0           py312h9f69965_1    conda-forge
bzip2                     1.0.8                h93a5062_5    conda-forge
ca-certificates           2024.2.2             hf0a4a13_0    conda-forge
cached-property           1.5.2                hd8ed1ab_1    conda-forge
cached_property           1.5.2              pyha770c72_1    conda-forge
certifi                   2024.2.2           pyhd8ed1ab_0    conda-forge
cffi                      1.16.0          py312h8e38eb3_0    conda-forge
charset-normalizer        3.3.2              pyhd8ed1ab_0    conda-forge
comm                      0.2.2              pyhd8ed1ab_0    conda-forge
debugpy                   1.8.1           py312h20a0b95_0    conda-forge
decorator                 5.1.1              pyhd8ed1ab_0    conda-forge
defusedxml                0.7.1              pyhd8ed1ab_0    conda-forge
entrypoints               0.4                pyhd8ed1ab_0    conda-forge
exceptiongroup            1.2.0              pyhd8ed1ab_2    conda-forge
executing                 2.0.1              pyhd8ed1ab_0    conda-forge
fqdn                      1.5.1              pyhd8ed1ab_0    conda-forge
h11                       0.14.0             pyhd8ed1ab_0    conda-forge
h2                        4.1.0              pyhd8ed1ab_0    conda-forge
hpack                     4.0.0              pyh9f0ad1d_0    conda-forge
httpcore                  1.0.5              pyhd8ed1ab_0    conda-forge
httpx                     0.27.0             pyhd8ed1ab_0    conda-forge
hyperframe                6.0.1              pyhd8ed1ab_0    conda-forge
icu                       73.2                 hc8870d7_0    conda-forge
idna                      3.6                pyhd8ed1ab_0    conda-forge
importlib-metadata        7.1.0              pyha770c72_0    conda-forge
importlib_metadata        7.1.0                hd8ed1ab_0    conda-forge
importlib_resources       6.4.0              pyhd8ed1ab_0    conda-forge
ipykernel                 6.29.3             pyh3cd1d5f_0    conda-forge
ipython                   8.22.2             pyh707e725_0    conda-forge
isoduration               20.11.0            pyhd8ed1ab_0    conda-forge
jedi                      0.19.1             pyhd8ed1ab_0    conda-forge
jinja2                    3.1.3              pyhd8ed1ab_0    conda-forge
json5                     0.9.24             pyhd8ed1ab_0    conda-forge
jsonpointer               2.4             py312h81bd7bf_3    conda-forge
jsonschema                4.21.1             pyhd8ed1ab_0    conda-forge
jsonschema-specifications 2023.12.1          pyhd8ed1ab_0    conda-forge
jsonschema-with-format-nongpl 4.21.1             pyhd8ed1ab_0    conda-forge
jupyter-lsp               2.2.4              pyhd8ed1ab_0    conda-forge
jupyter_client            8.6.1              pyhd8ed1ab_0    conda-forge
jupyter_core              5.7.2           py312h81bd7bf_0    conda-forge
jupyter_events            0.10.0             pyhd8ed1ab_0    conda-forge
jupyter_server            2.13.0             pyhd8ed1ab_0    conda-forge
jupyter_server_terminals  0.5.3              pyhd8ed1ab_0    conda-forge
jupyterlab                4.1.5              pyhd8ed1ab_0    conda-forge
jupyterlab-myst           2.3.1              pyhd8ed1ab_0    conda-forge
jupyterlab_pygments       0.3.0              pyhd8ed1ab_1    conda-forge
jupyterlab_server         2.25.4             pyhd8ed1ab_0    conda-forge
libcxx                    16.0.6               h4653b0c_0    conda-forge
libexpat                  2.6.2                hebf3989_0    conda-forge
libffi                    3.4.2                h3422bc3_5    conda-forge
libsodium                 1.0.18               h27ca646_1    conda-forge
libsqlite                 3.45.2               h091b4b1_0    conda-forge
libuv                     1.48.0               h93a5062_0    conda-forge
libzlib                   1.2.13               h53f4e23_5    conda-forge
markupsafe                2.1.5           py312he37b823_0    conda-forge
matplotlib-inline         0.1.6              pyhd8ed1ab_0    conda-forge
mistune                   3.0.2              pyhd8ed1ab_0    conda-forge
mystmd                    1.1.48             pyh5bfe37b_0    conda-forge
nbclient                  0.10.0             pyhd8ed1ab_0    conda-forge
nbconvert-core            7.16.3             pyhd8ed1ab_0    conda-forge
nbformat                  5.10.3             pyhd8ed1ab_0    conda-forge
ncurses                   6.4.20240210         h078ce10_0    conda-forge
nest-asyncio              1.6.0              pyhd8ed1ab_0    conda-forge
nodeenv                   1.8.0              pyhd8ed1ab_0    conda-forge
nodejs                    20.9.0               h3b52c9b_1    conda-forge
notebook-shim             0.2.4              pyhd8ed1ab_0    conda-forge
openssl                   3.2.1                h0d3ecfb_1    conda-forge
overrides                 7.7.0              pyhd8ed1ab_0    conda-forge
packaging                 24.0               pyhd8ed1ab_0    conda-forge
pandocfilters             1.5.0              pyhd8ed1ab_0    conda-forge
parso                     0.8.3              pyhd8ed1ab_0    conda-forge
pexpect                   4.9.0              pyhd8ed1ab_0    conda-forge
pickleshare               0.7.5                   py_1003    conda-forge
pip                       24.0               pyhd8ed1ab_0    conda-forge
pkgutil-resolve-name      1.3.10             pyhd8ed1ab_1    conda-forge
platformdirs              4.2.0              pyhd8ed1ab_0    conda-forge
prometheus_client         0.20.0             pyhd8ed1ab_0    conda-forge
prompt-toolkit            3.0.42             pyha770c72_0    conda-forge
psutil                    5.9.8           py312he37b823_0    conda-forge
ptyprocess                0.7.0              pyhd3deb0d_0    conda-forge
pure_eval                 0.2.2              pyhd8ed1ab_0    conda-forge
pycparser                 2.21               pyhd8ed1ab_0    conda-forge
pygments                  2.17.2             pyhd8ed1ab_0    conda-forge
pyobjc-core               10.2            py312h9d22092_0    conda-forge
pyobjc-framework-cocoa    10.2            py312h9d22092_0    conda-forge
pysocks                   1.7.1              pyha2e5f31_6    conda-forge
python                    3.12.2          hdf0ec26_0_cpython    conda-forge
python-dateutil           2.9.0              pyhd8ed1ab_0    conda-forge
python-fastjsonschema     2.19.1             pyhd8ed1ab_0    conda-forge
python-json-logger        2.0.7              pyhd8ed1ab_0    conda-forge
python_abi                3.12                    4_cp312    conda-forge
pytz                      2024.1             pyhd8ed1ab_0    conda-forge
pyyaml                    6.0.1           py312h02f2b3b_1    conda-forge
pyzmq                     25.1.2          py312h1edf716_0    conda-forge
readline                  8.2                  h92ec313_1    conda-forge
referencing               0.34.0             pyhd8ed1ab_0    conda-forge
requests                  2.31.0             pyhd8ed1ab_0    conda-forge
rfc3339-validator         0.1.4              pyhd8ed1ab_0    conda-forge
rfc3986-validator         0.1.1              pyh9f0ad1d_0    conda-forge
rpds-py                   0.18.0          py312h77200ec_0    conda-forge
send2trash                1.8.2              pyhd1c38e8_0    conda-forge
setuptools                69.2.0             pyhd8ed1ab_0    conda-forge
six                       1.16.0             pyh6c4a22f_0    conda-forge
sniffio                   1.3.1              pyhd8ed1ab_0    conda-forge
soupsieve                 2.5                pyhd8ed1ab_1    conda-forge
stack_data                0.6.2              pyhd8ed1ab_0    conda-forge
terminado                 0.18.1             pyh31c8845_0    conda-forge
tinycss2                  1.2.1              pyhd8ed1ab_0    conda-forge
tk                        8.6.13               h5083fa2_1    conda-forge
tomli                     2.0.1              pyhd8ed1ab_0    conda-forge
tornado                   6.4             py312he37b823_0    conda-forge
traitlets                 5.14.2             pyhd8ed1ab_0    conda-forge
types-python-dateutil     2.9.0.20240316     pyhd8ed1ab_0    conda-forge
typing-extensions         4.10.0               hd8ed1ab_0    conda-forge
typing_extensions         4.10.0             pyha770c72_0    conda-forge
typing_utils              0.1.0              pyhd8ed1ab_0    conda-forge
tzdata                    2024a                h0c530f3_0    conda-forge
uri-template              1.3.0              pyhd8ed1ab_0    conda-forge
urllib3                   2.2.1              pyhd8ed1ab_0    conda-forge
wcwidth                   0.2.13             pyhd8ed1ab_0    conda-forge
webcolors                 1.13               pyhd8ed1ab_0    conda-forge
webencodings              0.5.1              pyhd8ed1ab_2    conda-forge
websocket-client          1.7.0              pyhd8ed1ab_0    conda-forge
wheel                     0.43.0             pyhd8ed1ab_1    conda-forge
xz                        5.2.6                h57fd34a_0    conda-forge
yaml                      0.2.5                h3422bc3_2    conda-forge
zeromq                    4.3.5                hebf3989_1    conda-forge
zipp                      3.17.0             pyhd8ed1ab_0    conda-forge
zlib                      1.2.13               h53f4e23_5    conda-forge
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@rowanc1
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rowanc1 commented Mar 28, 2024

This has been fixed here:
jupyter-book/jupyterlab-myst#228

We will make a release on monday! Currently our release infrastructure isn't working to get the patch out.

@rowanc1 rowanc1 added the bug Something isn't working label Mar 28, 2024
@tguilment
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Thanks Rowan! If someone needs the fix for now. Here are the steps to update the package:

After activating the virtual environment
mamba activate ./myst-env

Clone the repository and install it locally with pip install -e .

git clone https://github.com/executablebooks/jupyterlab-myst.git
cd jupyterlab-myst
pip install -e .

Now my list works:
working_list_anonymized

@rowanc1
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rowanc1 commented Mar 28, 2024

Fantastic - glad that you are unblocked locally!

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