fit.summary() not working in jupyter notebooks

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#744 opened on Apr 8, 2024 8 comments 0 reactions 0 assignees View on GitHub

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Assessment

Difficulty: 4/5
Estimated time: 3-5 days
Newbie friendliness: 35/100

Issue type: Bug
Clarity: Mostly clear
Activity status: Stale
Tech stack: jupyter-notebook, python
Domain: developer-experience

Research direction

Reproduce the Hello World tutorial in a Jupyter notebook and compare fit.summary() and fit.diagnose() with the same tutorial run as a Python file. Start by tracing the RuntimeError and signal 6 from the diagnose command; done means both calls work in the notebook without crashing.

Written by the indexing model from the issue text.

Description

Summary:

fit.summary() crashes when run in a jupyter notebook.

Description:

fit.summary() and fit.diagnose() don't work when following the Hello World tutorial in a jupyter notebook.

The tutorial works fine when run as a python file.

Additional Information:

Error RuntimeError: Command ['/Users/ff/.cmdstan/cmdstan-2.34.1/bin/diagnose', '/var/folders/2r/tmwm99ns51qfspk50vj23snh0000gn/T/tmpvoigfpsl/bernoulliomselojt/bernoulli-20240408175756_1.csv', '/var/folders/2r/tmwm99ns51qfspk50vj23snh0000gn/T/tmpvoigfpsl/bernoulliomselojt/bernoulli-20240408175756_2.csv', '/var/folders/2r/tmwm99ns51qfspk50vj23snh0000gn/T/tmpvoigfpsl/bernoulliomselojt/bernoulli-20240408175756_3.csv', '/var/folders/2r/tmwm99ns51qfspk50vj23snh0000gn/T/tmpvoigfpsl/bernoulliomselojt/bernoulli-20240408175756_4.csv'] terminated by signal 6 Unknown error: -6

Current Version:

INSTALLED VERSIONS
---------------------
python: 3.12.2 | packaged by conda-forge | (main, Feb 16 2024, 20:54:21) [Clang 16.0.6 ]
python-bits: 64
OS: Darwin
OS-release: 23.4.0
machine: arm64
processor: arm
byteorder: little
LC_ALL: None
LANG: None
LOCALE: (None, 'UTF-8')
cmdstan_folder: /Users/ff/.cmdstan/cmdstan-2.34.1
cmdstan: (2, 34)
cmdstanpy: 1.2.2
pandas: 2.2.1
xarray: 2024.3.0
tqdm: 4.66.2
numpy: 1.26.4

Dominant language: Python
Stars: 198
Forks: 81
PR merge metrics: No merged PRs in 30d

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