add enforce-notebook-run-order pre-commit hook to config; rerun notebooks

[AgnieszkaZaba]

No description provided.

[codecov]

Codecov Report

✅ All modified and coverable lines are covered by tests.
✅ Project coverage is 86.76%. Comparing base (e8a464b) to head (617b755).

Additional details and impacted files

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##             main    #1773   +/-   ##
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  Coverage   86.76%   86.76%           
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  Files         414      414           
  Lines       10485    10485           
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  Hits         9097     9097           
  Misses       1388     1388           

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[slayoo]

@AgnieszkaZaba, this is super-useful!

enforce-notebook-run-order...............................................Failed
- hook id: enforce-notebook-run-order
- exit code: 1

❌ INVALID: examples/PySDM_examples/deJong_Azimi/box.ipynb
Error: Cells were not run sequentially. The cell that caused this error is #1 
and the previous cell was #1.

To fix this, restart the notebook kernel and run all cells sequentially.

❌ INVALID: examples/PySDM_examples/Lowe_et_al_2019/fig_2.ipynb
Error: Code cell was not run. The previous cell was #2.

To fix this, restart the notebook kernel and run all cells sequentially.

❌ INVALID: examples/PySDM_examples/Arabas_et_al_2025/fig_2.ipynb
Error: Cells were not run sequentially. The cell that caused this error is #8 
and the previous cell was #0.

To fix this, restart the notebook kernel and run all cells sequentially.

❌ INVALID: examples/PySDM_examples/Lowe_et_al_2019/fig_3.ipynb
Error: Cells were not run sequentially. The cell that caused this error is #5 
and the previous cell was #3.

To fix this, restart the notebook kernel and run all cells sequentially.

[slayoo]

just added analogous PRs to:

• PyMPDATA: add enforce-notebook-run-order pre-commit hook to config PyMPDATA#650
• PyPartMC: add enforce-notebook-run-order pre-commit hook to config PyPartMC#472

[AgnieszkaZaba]

@slayoo I don't know why we did not set it earlier. It was only in devops_tests!

[AgnieszkaZaba]

Before merging, I have to check all notebooks if they actually contain correct outputs (some of them are run with CI flag)

[AgnieszkaZaba]

TODO Problem with rerunning - Values and plots are not correct

[AgnieszkaZaba]

TODO rerun again, contains warning

[AgnieszkaZaba]

TODO UserWarning: adaptive time-step reached dt_min
warnings.warn("adaptive time-step reached dt_min")

[AgnieszkaZaba]

TODO Needs rerun? Plots are different

[AgnieszkaZaba]

TODO S plot is not correct

[AgnieszkaZaba]

TODO S plot is not correct

[AgnieszkaZaba]

TODO no S plot

[AgnieszkaZaba]

Outputs slightly different

[AgnieszkaZaba]

TODO plots are different!

[AgnieszkaZaba]

Previously no plots - check if smoke test are passing