Updting precommit

.pre-commit-config.yaml

@@ -1,6 +1,6 @@
 repos:
   - repo: https://github.com/pre-commit/pre-commit-hooks
-    rev: v4.5.0
+    rev: v4.6.0
     hooks:
       - id: check-added-large-files
         args: ["--maxkb=5000"]
@@ -14,16 +14,16 @@ repos:
           - --unsafe
       - id: trailing-whitespace
   - repo: https://github.com/astral-sh/ruff-pre-commit
-    rev: v0.1.14
+    rev: v0.3.7
     hooks:
       - id: ruff
         args: ["--fix", "--no-unsafe-fixes"]
       - id: ruff-format
-  - repo: local
-    hooks:
-      - id: tests
-        name: tests
-        language: system
-        types: [python]
-        pass_filenames: false
-        entry: poetry run pytest
+  # - repo: local
+  #   hooks:
+  #     - id: tests
+  #       name: tests
+  #       language: system
+  #       types: [python]
+  #       pass_filenames: false
+  #       entry: poetry run pytest

docs/examples/advanced_examples/plot_0_grid.py

@@ -15,6 +15,7 @@
 the order of the parameters is not preserved in the dictionary.
 
 """
+
 import numpy as np
 import pandas as pd
 

docs/examples/advanced_examples/plot_1_blinding.py

@@ -8,6 +8,7 @@
 or give it a string (or list of strings) detailing the specific parameters you want blinded!
 
 """
+
 from chainconsumer import Chain, ChainConsumer, PlotConfig, make_sample
 
 df = make_sample(num_dimensions=4, seed=1)

docs/examples/advanced_examples/plot_2_kde.py

@@ -15,6 +15,7 @@
 increses the width of the marginal distributions.
 
 """
+
 from chainconsumer import Chain, ChainConsumer, PlotConfig, make_sample
 
 df = make_sample(num_dimensions=2, seed=3, num_points=1000)

docs/examples/advanced_examples/plot_3_divide_chains.py

@@ -12,6 +12,7 @@
 In this toy example, all the chains are from the same random generator,
 so they're on top of each other. Except MCMC chains to not be as perfect.
 """
+
 from chainconsumer import Chain, ChainConsumer, PlotConfig, make_sample
 
 df = make_sample(num_dimensions=2, seed=3, num_points=40000)

docs/examples/advanced_examples/plot_4_misc_chain_visuals.py

@@ -3,6 +3,7 @@
 
 Rather than having one example for each option, let's condense things.
 """
+
 # %%
 # Shade Gradient
 # --------------

docs/examples/plot_0_contours.py

@@ -5,6 +5,7 @@
 handle the defaults and display.
 
 """
+
 from chainconsumer import Chain, ChainConfig, ChainConsumer, PlotConfig, Truth, make_sample
 
 # Here's what you might start with

docs/examples/plot_1_summary.py

@@ -7,6 +7,7 @@
 To show you how they work, let's make some sample data that all
 has the same average.
 """
+
 from chainconsumer import Chain, ChainConfig, ChainConsumer, PlotConfig, Truth, make_sample
 
 # Here's what you might start with

docs/examples/plot_2_textual_output.py

@@ -4,6 +4,7 @@
 Because typing those things out is a **massive pain in the ass.**
 
 """
+
 from chainconsumer import Chain, ChainConsumer, Truth, make_sample
 
 # Here's a sample dataset

docs/examples/plot_3_distributions.py

@@ -7,6 +7,7 @@
 To show you how they work, let's make some sample data that all
 has the same average.
 """
+
 from chainconsumer import Chain, ChainConsumer, Truth, make_sample
 
 # Here's what you might start with

docs/examples/plot_4_walks.py

@@ -3,6 +3,7 @@
 
 Want to see if your chain is behaving nicely? Use a walk!
 """
+
 from chainconsumer import Chain, ChainConsumer, Truth, make_sample
 
 # Here's a sample dataset

docs/examples/plot_6_custom_axes.py

@@ -8,6 +8,7 @@
 Here's an example, noting that there are also `plot_point`, `plot_surface` available
 that I haven't explicitly shown.
 """
+
 import matplotlib.pyplot as plt
 
 from chainconsumer import Chain, Truth, make_sample

pyproject.toml

@@ -30,9 +30,9 @@ emcee = "^3.1.4"
 arviz = ">=0.16.1, <1"
 
 [tool.poetry.group.dev.dependencies]
-pre-commit = ">=3.3.3"
-ruff = ">=0.1.4, <1"
-mypy = "^1.4.1"
+pre-commit = ">=3.7.0"
+ruff = ">=0.3.7, <1"
+mypy = "^1.9.0"
 pandas-stubs = "^2.1.1.230928"
 
 
@@ -48,17 +48,20 @@ mkdocs-gallery = ">=0.7.8"
 
 [tool.ruff]
 src = ["src"]
-select = ["E", "F", "I", "N", "W", "D207", "D208", "D300", "UP", "YTT", "ASYNC", "DTZ", "G10", "G101", "G201", "G202", "INP001", "PIE", "T20", "SIM", "PTH", "PD", "PLE", "PLR", "PLW", "TRY", "NPY", "RUF"]
-ignore = ["PD010", "PD901", "PLR2004", "UP017", "PLR0915", "TRY003", "INP001", "PLR0912", "PLR0913", "TRY300", "E712"]
 line-length = 120
 target-version = "py310"
 
+[tool.ruff.lint]
+select = ["E", "F", "I", "N", "W", "D207", "D208", "D300", "UP", "YTT", "ASYNC", "DTZ", "G10", "G101", "G201", "G202", "INP001", "PIE", "T20", "SIM", "PTH", "PD", "PLE", "PLR", "PLW", "TRY", "NPY", "RUF"]
+ignore = ["PD010", "PD901", "PLR2004", "UP017", "PLR0915", "TRY003", "INP001", "PLR0912", "PLR0913", "TRY300", "E712"]
+
+
 [tool.ruff.format]
 indent-style = "space"
 quote-style = "double"
 line-ending = "auto"
 
-[tool.ruff.extend-per-file-ignores]
+[tool.ruff.lint.extend-per-file-ignores]
 "test/***" = ["INP001"]
 "__init__.py" = ["E402", "F401"]
 "examples/***" = ["T201", "NPY002"]

src/chainconsumer/analysis.py

@@ -26,9 +26,9 @@ class Bound(BetterBase):
     def array(self) -> np.ndarray:
         return np.array(
             [
-                self.lower if self.lower is not None else np.NaN,
-                self.center if self.center is not None else np.NaN,
-                self.upper if self.upper is not None else np.NaN,
+                self.lower if self.lower is not None else np.nan,
+                self.center if self.center is not None else np.nan,
+                self.upper if self.upper is not None else np.nan,
             ]
         )
 

src/chainconsumer/chain.py

@@ -7,6 +7,7 @@
 
 There are also a few helper functions and objects in here, like the `MaxPosterior` class which
 provides the log posterior and the coordinate at which it can be found for the chain."""
+
 from __future__ import annotations
 
 import logging