[pre-commit.ci] pre-commit autoupdate

[pre-commit-ci]

updates:

• github.com/pre-commit/pre-commit-hooks: v4.6.0 → v5.0.0
• github.com/astral-sh/ruff-pre-commit: v0.5.6 → v0.9.4

[twiecki]

ruff.....................................................................Failed
- hook id: ruff
- exit code: 1
- files were modified by this hook

notebooks/pytensor_logp.ipynb:cell 9:2:89: E501 Line too long (89 > 88)
  |
1 | %%time
2 | # The compilation time is pretty bad right now, I think this can be improved a lot though
  |                                                                                         ^ E501
3 | compiled_model = nutpie.compile_pymc_model(pymc_model)
  |

notebooks/pytensor_logp.ipynb:cell 19:2:6: PTH123 `open()` should be replaced by `Path.open()`
  |
1 | %%time
2 | with open("radon_model.stan") as file:
  |      ^^^^ PTH123
3 |     model = stan.build(file.read(), data=data_stan)
  |

notebooks/pytensor_logp.ipynb:cell 25:1:89: E501 Line too long (168 > 88)
  |
1 | plt.plot((trace_pymc.warmup_sample_stats.n_steps).isel(draw=slice(0, 1000)).cumsum("draw").T, np.log(trace_pymc.warmup_sample_stats.energy.isel(draw=slice(0, 1000)).T))
  |                                                                                         ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ E501
2 | plt.xlim(0, 10000)
3 | plt.ylabel("log-energy")
  |

notebooks/pytensor_logp.ipynb:cell 27:1:89: E501 Line too long (174 > 88)
  |
1 | plt.plot((trace_cmdstan.warmup_sample_stats.n_steps).isel(draw=slice(0, 1000)).cumsum("draw").T, np.log(trace_cmdstan.warmup_sample_stats.energy.isel(draw=slice(0, 1000)).T))
  |                                                                                         ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ E501
2 | plt.xlim(0, 10000)
3 | plt.ylabel("log-energy")
  |

notebooks/pytensor_logp.ipynb:cell 35:1:89: E501 Line too long (113 > 88)
  |
1 | type({name: int(val) if isinstance(val, int) else list(val) for name, val in data_stan.items()}["county_idx"][0])
  |                                                                                         ^^^^^^^^^^^^^^^^^^^^^^^^^ E501
  |

notebooks/pytensor_logp.ipynb:cell 36:8:27: C400 Unnecessary generator (rewrite as a `list` comprehension)
  |
7 |     if val.dtype == np.int64:
8 |         data_json[name] = list(int(x) for x in val)
  |                           ^^^^^^^^^^^^^^^^^^^^^^^^^ C400
9 |         continue
  |
  = help: Rewrite as a `list` comprehension

notebooks/pytensor_logp.ipynb:cell 36:13:6: PTH123 `open()` should be replaced by `Path.open()`
   |
11 |     data_json[name] = list(val)
12 | 
13 | with open("radon.json", "w") as file:
   |      ^^^^ PTH123
14 |     json.dump(data_json, file)
   |

notebooks/pytensor_logp.ipynb:cell 37:2:89: E501 Line too long (91 > 88)
  |
1 | %%time
2 | out = !./radon_model sample num_chains=10 save_warmup=1 data file=radon.json num_threads=10
  |                                                                                         ^^^ E501
  |


Fixed 10 errors:
- notebooks/pytensor_logp.ipynb:
    3 × W293 (blank-line-with-whitespace)
    2 × I001 (unsorted-imports)
    2 × E703 (useless-semicolon)
    2 × F401 (unused-import)
    1 × UP015 (redundant-open-modes)

Found 18 errors (10 fixed, 8 remaining).
No fixes available (1 hidden fix can be enabled with the `--unsafe-fixes` option).

ruff-format..............................................................Failed
- hook id: ruff-format

[twiecki]

notebooks/pytensor_logp.ipynb:cell 9:2:89: E501 Line too long (89 > 88)
  |
1 | %%time
2 | # The compilation time is pretty bad right now, I think this can be improved a lot though
  |                                                                                         ^ E501
3 | compiled_model = nutpie.compile_pymc_model(pymc_model)
  |

notebooks/pytensor_logp.ipynb:cell 19:2:6: PTH123 `open()` should be replaced by `Path.open()`
  |
1 | %%time
2 | with open("radon_model.stan") as file:
  |      ^^^^ PTH123
3 |     model = stan.build(file.read(), data=data_stan)
  |

notebooks/pytensor_logp.ipynb:cell 25:1:89: E501 Line too long (168 > 88)
  |
1 | plt.plot((trace_pymc.warmup_sample_stats.n_steps).isel(draw=slice(0, 1000)).cumsum("draw").T, np.log(trace_pymc.warmup_sample_stats.energy.isel(draw=slice(0, 1000)).T))
  |                                                                                         ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ E501
2 | plt.xlim(0, 10000)
3 | plt.ylabel("log-energy")
  |

notebooks/pytensor_logp.ipynb:cell 27:1:89: E501 Line too long (174 > 88)
  |
1 | plt.plot((trace_cmdstan.warmup_sample_stats.n_steps).isel(draw=slice(0, 1000)).cumsum("draw").T, np.log(trace_cmdstan.warmup_sample_stats.energy.isel(draw=slice(0, 1000)).T))
  |                                                                                         ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ E501
2 | plt.xlim(0, 10000)
3 | plt.ylabel("log-energy")
  |

notebooks/pytensor_logp.ipynb:cell 35:1:89: E501 Line too long (113 > 88)
  |
1 | type({name: int(val) if isinstance(val, int) else list(val) for name, val in data_stan.items()}["county_idx"][0])
  |                                                                                         ^^^^^^^^^^^^^^^^^^^^^^^^^ E501
  |

notebooks/pytensor_logp.ipynb:cell 36:8:27: C400 Unnecessary generator (rewrite as a `list` comprehension)
  |
7 |     if val.dtype == np.int64:
8 |         data_json[name] = list(int(x) for x in val)
  |                           ^^^^^^^^^^^^^^^^^^^^^^^^^ C400
9 |         continue
  |
  = help: Rewrite as a `list` comprehension

notebooks/pytensor_logp.ipynb:cell 36:13:6: PTH123 `open()` should be replaced by `Path.open()`
   |
11 |     data_json[name] = list(val)
12 | 
13 | with open("radon.json", "w") as file:
   |      ^^^^ PTH123
14 |     json.dump(data_json, file)
   |

notebooks/pytensor_logp.ipynb:cell 37:2:89: E501 Line too long (91 > 88)
  |
1 | %%time
2 | out = !./radon_model sample num_chains=10 save_warmup=1 data file=radon.json num_threads=10
  |                                                                                         ^^^ E501
  |


Fixed 10 errors:
- notebooks/pytensor_logp.ipynb:
    3 × W293 (blank-line-with-whitespace)
    2 × I001 (unsorted-imports)
    2 × E703 (useless-semicolon)
    2 × F401 (unused-import)
    1 × UP015 (redundant-open-modes)