From cee6cd27990edeee62fee4185e98945d1f05f160 Mon Sep 17 00:00:00 2001
From: "pre-commit-ci[bot]"
 <66853113+pre-commit-ci[bot]@users.noreply.github.com>
Date: Mon, 8 Apr 2024 20:21:29 +0000
Subject: [PATCH 1/2] [pre-commit.ci] pre-commit autoupdate
MIME-Version: 1.0
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit

updates:
- [github.com/pre-commit/pre-commit-hooks: v4.5.0 → v4.6.0](https://github.com/pre-commit/pre-commit-hooks/compare/v4.5.0...v4.6.0)
- [github.com/psf/black-pre-commit-mirror: 23.12.1 → 24.3.0](https://github.com/psf/black-pre-commit-mirror/compare/23.12.1...24.3.0)
- [github.com/asottile/pyupgrade: v3.15.0 → v3.15.2](https://github.com/asottile/pyupgrade/compare/v3.15.0...v3.15.2)
---
 .pre-commit-config.yaml | 6 +++---
 1 file changed, 3 insertions(+), 3 deletions(-)

diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml
index 89bfa66..e31a081 100644
--- a/.pre-commit-config.yaml
+++ b/.pre-commit-config.yaml
@@ -2,7 +2,7 @@ exclude: '^docs/conf.py'
 
 repos:
 - repo: https://github.com/pre-commit/pre-commit-hooks
-  rev: v4.5.0
+  rev: v4.6.0
   hooks:
   - id: trailing-whitespace
   - id: check-added-large-files
@@ -33,7 +33,7 @@ repos:
           - flake8-print
 # Using this mirror lets us use mypyc-compiled black, which is about 2x faster
 - repo: https://github.com/psf/black-pre-commit-mirror
-  rev: 23.12.1
+  rev: 24.3.0
   hooks:
     - id: black
 - repo: https://github.com/pre-commit/pygrep-hooks
@@ -46,7 +46,7 @@ repos:
   - id: isort
 
 - repo: https://github.com/asottile/pyupgrade
-  rev: v3.15.0
+  rev: v3.15.2
   hooks:
   - id: pyupgrade
     args: [--py38-plus]

From 0288372f66ae2c2e30a22a8feb4162064cd6c3a9 Mon Sep 17 00:00:00 2001
From: "pre-commit-ci[bot]"
 <66853113+pre-commit-ci[bot]@users.noreply.github.com>
Date: Mon, 8 Apr 2024 20:24:01 +0000
Subject: [PATCH 2/2] [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci
---
 setup.py                                   | 1 +
 src/hmf/__init__.py                        | 1 +
 src/hmf/_cli.py                            | 1 +
 src/hmf/_internals/__init__.py             | 1 +
 src/hmf/_internals/_cache.py               | 7 ++++---
 src/hmf/_internals/_framework.py           | 1 +
 src/hmf/alternatives/__init__.py           | 1 +
 src/hmf/cosmology/__init__.py              | 1 +
 src/hmf/cosmology/growth_factor.py         | 2 ++
 src/hmf/density_field/__init__.py          | 1 +
 src/hmf/density_field/halofit.py           | 1 +
 src/hmf/density_field/transfer.py          | 1 +
 src/hmf/density_field/transfer_models.py   | 7 ++++---
 src/hmf/halos/mass_definitions.py          | 4 ++--
 src/hmf/helpers/cfg_utils.py               | 1 +
 src/hmf/helpers/sample.py                  | 1 +
 src/hmf/mass_function/__init__.py          | 1 +
 src/hmf/mass_function/fitting_functions.py | 8 +++-----
 src/hmf/mass_function/integrate_hmf.py     | 5 ++---
 tests/test_genmf.py                        | 1 +
 tests/test_hmf.py                          | 1 +
 tests/test_integrate_hmf.py                | 4 +---
 22 files changed, 33 insertions(+), 19 deletions(-)

diff --git a/setup.py b/setup.py
index 87fecd8..c99d4ff 100644
--- a/setup.py
+++ b/setup.py
@@ -1,4 +1,5 @@
 """Setup the package."""
+
 from setuptools import setup
 
 setup()
diff --git a/src/hmf/__init__.py b/src/hmf/__init__.py
index 51b2808..b907edd 100644
--- a/src/hmf/__init__.py
+++ b/src/hmf/__init__.py
@@ -1,4 +1,5 @@
 """A package for producing halo mass functions under Spherical Collapse."""
+
 try:
     from importlib.metadata import PackageNotFoundError, version
 except ImportError:
diff --git a/src/hmf/_cli.py b/src/hmf/_cli.py
index 65f0c9d..8d95cd1 100644
--- a/src/hmf/_cli.py
+++ b/src/hmf/_cli.py
@@ -1,4 +1,5 @@
 """Module that contains the command line app."""
+
 import click
 import importlib
 import numpy as np
diff --git a/src/hmf/_internals/__init__.py b/src/hmf/_internals/__init__.py
index 0b77a5f..eac1cae 100644
--- a/src/hmf/_internals/__init__.py
+++ b/src/hmf/_internals/__init__.py
@@ -2,6 +2,7 @@
 
 These define the structure of the entire library.
 """
+
 from ._cache import cached_quantity, parameter
 from ._framework import (
     Component,
diff --git a/src/hmf/_internals/_cache.py b/src/hmf/_internals/_cache.py
index ec21e0d..4628957 100644
--- a/src/hmf/_internals/_cache.py
+++ b/src/hmf/_internals/_cache.py
@@ -6,6 +6,7 @@
 functionality of being automatically updated when a parent property is
 updated.
 """
+
 import warnings
 from copy import deepcopy
 from functools import update_wrapper
@@ -104,9 +105,9 @@ def _get_property(self):
         # if name is already there, can only be because the method has been supered.
         supered = name in activeq
         if not supered:
-            recalc_prpa[
-                name
-            ] = set()  # Empty set to which parameter names will be added
+            recalc_prpa[name] = (
+                set()
+            )  # Empty set to which parameter names will be added
             activeq.add(name)
 
         # Go ahead and calculate the value -- each parameter accessed will add itself to the index.
diff --git a/src/hmf/_internals/_framework.py b/src/hmf/_internals/_framework.py
index b899bd9..936af19 100644
--- a/src/hmf/_internals/_framework.py
+++ b/src/hmf/_internals/_framework.py
@@ -1,4 +1,5 @@
 """Classes defining the overall structure of the hmf framework."""
+
 import copy
 import deprecation
 import logging
diff --git a/src/hmf/alternatives/__init__.py b/src/hmf/alternatives/__init__.py
index 97e3ac9..c9212a1 100644
--- a/src/hmf/alternatives/__init__.py
+++ b/src/hmf/alternatives/__init__.py
@@ -2,4 +2,5 @@
 A subpackage dedicated to providing "plugin"-style alternatives to the standard halo mass function, for example
 Warm Dark Matter cosmologies.
 """
+
 from . import wdm
diff --git a/src/hmf/cosmology/__init__.py b/src/hmf/cosmology/__init__.py
index 756ddc0..6e222ec 100644
--- a/src/hmf/cosmology/__init__.py
+++ b/src/hmf/cosmology/__init__.py
@@ -1,4 +1,5 @@
 """Cosmographic calculations, and other purely cosmological quantities, such as growth factor."""
+
 from . import cosmo
 from .cosmo import Cosmology, astropy_to_colossus
 from .growth_factor import GrowthFactor
diff --git a/src/hmf/cosmology/growth_factor.py b/src/hmf/cosmology/growth_factor.py
index 9976762..b94f129 100644
--- a/src/hmf/cosmology/growth_factor.py
+++ b/src/hmf/cosmology/growth_factor.py
@@ -30,6 +30,7 @@ class _GrowthFactor(Cmpt):
     r"""
     General class for a growth factor calculation.
     """
+
     supported_cosmos = (cosmology.LambdaCDM,)
 
     def __init__(self, cosmo, **model_parameters):
@@ -64,6 +65,7 @@ class GrowthFactor(_GrowthFactor):
     ----------
     .. [1] Lukic et. al., ApJ, 2007, http://adsabs.harvard.edu/abs/2007ApJ...671.1160L
     """
+
     _defaults = {"dlna": 0.01, "amin": 1e-8}
 
     def __init__(self, *args, **kwargs):
diff --git a/src/hmf/density_field/__init__.py b/src/hmf/density_field/__init__.py
index 2fe77aa..30615f8 100644
--- a/src/hmf/density_field/__init__.py
+++ b/src/hmf/density_field/__init__.py
@@ -2,6 +2,7 @@
 A subpackage dedicated to basic measures of the matter density field -- its 2-point structure, cosmological transfer
 functions, and filter functions which can be applied to it.
 """
+
 from . import filters, transfer, transfer_models
 from .filters import Filter
 from .halofit import halofit
diff --git a/src/hmf/density_field/halofit.py b/src/hmf/density_field/halofit.py
index 08cdffa..047ce60 100644
--- a/src/hmf/density_field/halofit.py
+++ b/src/hmf/density_field/halofit.py
@@ -6,6 +6,7 @@
 and Michael Schneider (https://code.google.com/p/chomp/). It has
 been modified to improve its integration with this package.
 """
+
 import numpy as np
 import warnings
 from scipy.integrate import simps as _simps
diff --git a/src/hmf/density_field/transfer.py b/src/hmf/density_field/transfer.py
index 70e2bb9..6010b68 100644
--- a/src/hmf/density_field/transfer.py
+++ b/src/hmf/density_field/transfer.py
@@ -5,6 +5,7 @@
 calculate the transfer function, matter power spectrum and several other
 related quantities.
 """
+
 import numpy as np
 
 from .._internals._cache import cached_quantity, parameter
diff --git a/src/hmf/density_field/transfer_models.py b/src/hmf/density_field/transfer_models.py
index ff116c4..df0e71f 100644
--- a/src/hmf/density_field/transfer_models.py
+++ b/src/hmf/density_field/transfer_models.py
@@ -4,6 +4,7 @@
 Note that these are not transfer function "frameworks". The framework is found
 in :mod:`hmf.transfer`.
 """
+
 import numpy as np
 import pickle
 import warnings
@@ -462,9 +463,7 @@ def _set_params(self):
         self.z_eq = 2.5e4 * self.Omh2 * self.theta_cmb ** (-4)  # really 1+z
         self.k_eq = 7.46e-2 * self.Omh2 * self.theta_cmb ** (-2)  # units Mpc^-1 (no h!)
 
-        self.z_drag_b1 = (
-            0.313 * self.Omh2**-0.419 * (1.0 + 0.607 * self.Omh2**0.674)
-        )
+        self.z_drag_b1 = 0.313 * self.Omh2**-0.419 * (1.0 + 0.607 * self.Omh2**0.674)
         self.z_drag_b2 = 0.238 * self.Omh2**0.223
         self.z_drag = (
             1291.0
@@ -686,6 +685,7 @@ class attribute.
     .. math:: \Gamma \rightarrow \Gamma
               \exp\left(-\Omega_{b,0}(1 + \sqrt{2h}/\Omega_{m,0})\right).
     """
+
     _defaults = {
         "a": 2.34,
         "b": 3.89,
@@ -760,6 +760,7 @@ class attribute.
 
     .. math:: \alpha = \frac{0.3\times 0.75^2}{\Omega_{m,0} h^2}.
     """
+
     _defaults = {"a": 37.1, "b": 21.1, "c": 10.8, "nu": 1.12}
 
     def lnt(self, lnk):
diff --git a/src/hmf/halos/mass_definitions.py b/src/hmf/halos/mass_definitions.py
index 4d4ed1e..44765cf 100644
--- a/src/hmf/halos/mass_definitions.py
+++ b/src/hmf/halos/mass_definitions.py
@@ -3,6 +3,7 @@
 This is primarily inspired by Benedikt Diemer's COLOSSUS code:
 https://bdiemer.bitbucket.io/colossus/halo_mass_defs.html
 """
+
 import astropy.units as u
 import numpy as np
 import scipy as sp
@@ -366,8 +367,7 @@ def h(x):
             return np.log(1.0 + x) - x / (1.0 + x)
 
     fnc = (
-        lambda x, rhos, density_threshold: rhos * h(x) * 3.0 / x**3
-        - density_threshold
+        lambda x, rhos, density_threshold: rhos * h(x) * 3.0 / x**3 - density_threshold
     )
 
     while x is None and i < len(XDELTA_GUESS_FACTORS):
diff --git a/src/hmf/helpers/cfg_utils.py b/src/hmf/helpers/cfg_utils.py
index 0d6cbaa..a7b4137 100644
--- a/src/hmf/helpers/cfg_utils.py
+++ b/src/hmf/helpers/cfg_utils.py
@@ -1,4 +1,5 @@
 """Utilities for interacting with hmf TOML configs."""
+
 from astropy.units import Quantity
 from datetime import datetime
 from inspect import signature
diff --git a/src/hmf/helpers/sample.py b/src/hmf/helpers/sample.py
index b05cc1b..98919e2 100644
--- a/src/hmf/helpers/sample.py
+++ b/src/hmf/helpers/sample.py
@@ -3,6 +3,7 @@
 
 Provides routines for sampling theoretical functions, and for binning sampled data.
 """
+
 import numpy as np
 from scipy.interpolate import InterpolatedUnivariateSpline as _spline
 
diff --git a/src/hmf/mass_function/__init__.py b/src/hmf/mass_function/__init__.py
index 028b591..58a75eb 100644
--- a/src/hmf/mass_function/__init__.py
+++ b/src/hmf/mass_function/__init__.py
@@ -1,4 +1,5 @@
 """Subpackage for determining the halo mass function in Spherical Collapse."""
+
 from . import fitting_functions, hmf, integrate_hmf
 from .fitting_functions import PS, SMT, FittingFunction, Tinker08
 from .hmf import MassFunction
diff --git a/src/hmf/mass_function/fitting_functions.py b/src/hmf/mass_function/fitting_functions.py
index b2092a6..5542815 100644
--- a/src/hmf/mass_function/fitting_functions.py
+++ b/src/hmf/mass_function/fitting_functions.py
@@ -178,6 +178,7 @@ class FittingFunction(_framework.Component):
 
     In that example, we did not specify :attr:`cutmask`.
     """
+
     _pdocs = r"""
 
     Parameters
@@ -641,8 +642,7 @@ def fsigma(self):
             * (1.0 + (1.0 / (a * self.nu**2)) ** p + 0.6 * G_1 + 0.4 * G_2)
             * self.nu
             * np.exp(
-                -c * a * self.nu**2 / 2.0
-                - 0.03 * self.nu**0.6 / (self.n_eff + 3) ** 2
+                -c * a * self.nu**2 / 2.0 - 0.03 * self.nu**0.6 / (self.n_eff + 3) ** 2
             )
         )
 
@@ -1516,9 +1516,7 @@ def normalise(self):
                 * self.beta ** (-2 * self.phi)
                 * self.gamma ** (-0.5 - self.eta)
                 * (
-                    2**self.phi
-                    * self.beta ** (2 * self.phi)
-                    * sp.gamma(self.eta + 0.5)
+                    2**self.phi * self.beta ** (2 * self.phi) * sp.gamma(self.eta + 0.5)
                     + self.gamma**self.phi * sp.gamma(0.5 + self.eta - self.phi)
                 )
             )
diff --git a/src/hmf/mass_function/integrate_hmf.py b/src/hmf/mass_function/integrate_hmf.py
index 69cded8..de7661c 100644
--- a/src/hmf/mass_function/integrate_hmf.py
+++ b/src/hmf/mass_function/integrate_hmf.py
@@ -1,6 +1,7 @@
 """
 A supporting module that provides a routine to integrate the differential hmf in a robust manner.
 """
+
 import numpy as np
 import scipy.integrate as intg
 from scipy.interpolate import InterpolatedUnivariateSpline as _spline
@@ -64,9 +65,7 @@ def hmf_integral_gtm(M, dndm, mass_density=False):
 
     # Calculate the mass function (and its integral) from the highest M up to 10**18
     if m[-1] < m[0] * 10**18 / m[3]:
-        m_upper = np.arange(
-            np.log(m[-1]), np.log(10**18), np.log(m[1]) - np.log(m[0])
-        )
+        m_upper = np.arange(np.log(m[-1]), np.log(10**18), np.log(m[1]) - np.log(m[0]))
         mf_func = _spline(np.log(m), np.log(dndlnm), k=1)
         mf = mf_func(m_upper)
 
diff --git a/tests/test_genmf.py b/tests/test_genmf.py
index 0442d1a..08062e5 100644
--- a/tests/test_genmf.py
+++ b/tests/test_genmf.py
@@ -41,6 +41,7 @@
     'transfer__k_per_logint': 0,
     'transfer__kmax':100.0
 """
+
 import pytest
 
 import numpy as np
diff --git a/tests/test_hmf.py b/tests/test_hmf.py
index 029c37e..3a8f1e8 100644
--- a/tests/test_hmf.py
+++ b/tests/test_hmf.py
@@ -1,4 +1,5 @@
 """Tests of HMF."""
+
 from pytest import raises
 
 import numpy as np
diff --git a/tests/test_integrate_hmf.py b/tests/test_integrate_hmf.py
index de9eee3..1944d68 100644
--- a/tests/test_integrate_hmf.py
+++ b/tests/test_integrate_hmf.py
@@ -26,9 +26,7 @@ def anl_int(self, m, loghs, alpha, beta):
         return 10**loghs * gammainc((alpha + 1) / beta, (m / 10**loghs) ** beta)
 
     def anl_m_int(self, m, loghs, alpha, beta):
-        return 10 ** (2 * loghs) * gammainc(
-            (alpha + 2) / beta, (m / 10**loghs) ** beta
-        )
+        return 10 ** (2 * loghs) * gammainc((alpha + 2) / beta, (m / 10**loghs) ** beta)
 
     # def test_basic(self):
     #     m = np.logspace(10,18,500)