emantis 1.2.2__tar.gz → 1.4.0__tar.gz

{emantis-1.2.2 → emantis-1.4.0}/PKG-INFO

@@ -1,27 +1,28 @@
-Metadata-Version: 2.1
+Metadata-Version: 2.4
 Name: emantis
-Version: 1.2.2
+Version: 1.4.0
 Summary: A cosmological emulator for nonlinear large-scale structure formation studies in alternative dark energy and gravity theories.
 Keywords: cosmology,emulator,large-scale structure,dark energy,modified gravity
-Author-Email: =?utf-8?q?I=C3=B1igo_S=C3=A1ez_Casares?= <inigo.saez-casares@obspm.fr>
-License: GPL-3.0-or-later
+Author-Email: Iñigo Sáez-Casares <inigo.saez-casares@obspm.fr>
+License-Expression: GPL-3.0-or-later
 Classifier: Programming Language :: Python :: 3
-Classifier: License :: OSI Approved :: GNU General Public License v3 (GPLv3)
 Classifier: Operating System :: OS Independent
 Classifier: Intended Audience :: Science/Research
 Classifier: Topic :: Scientific/Engineering :: Physics
 Project-URL: repository, https://gitlab.obspm.fr/e-mantis/e-mantis.git
 Project-URL: documentation, https://e-mantis.pages.obspm.fr/e-mantis/index.html
-Requires-Python: <3.15,>=3.10
+Requires-Python: >=3.10
 Requires-Dist: h5py<4.0,>=3.8
-Requires-Dist: scikit-learn<2,>=1
+Requires-Dist: scikit-learn<2,>=1.5
 Requires-Dist: numpy<3.0,>=1.24
 Requires-Dist: pydantic<3.0,>=2.6
 Requires-Dist: tomli<3,>=2; python_version < "3.11"
 Requires-Dist: joblib<2.0.0,>=1.3.2
+Requires-Dist: scipy<2,>=1.15
+Requires-Dist: threadpoolctl<4,>=3
 Description-Content-Type: text/x-rst
 
-|DOI|_ |PyPI|_ |release|_ |pipeline|_
+|DOI|_ |PyPI|_ |release|_ |pipeline|_ |coverage|_
 
 .. |DOI| image:: https://zenodo.org/badge/DOI/10.5281/zenodo.7738362.svg
 .. _DOI: https://doi.org/10.5281/zenodo.7738362
@@ -35,6 +36,9 @@ Description-Content-Type: text/x-rst
 .. |pipeline| image:: https://gitlab.obspm.fr/e-mantis/e-mantis/badges/main/pipeline.svg
 .. _pipeline: https://gitlab.obspm.fr/e-mantis/e-mantis/-/commits/main
 
+.. |coverage| image:: https://gitlab.obspm.fr/e-mantis/e-mantis/badges/main/coverage.svg
+.. _coverage: https://gitlab.obspm.fr/e-mantis/e-mantis/-/commits/main
+
 e-MANTIS: Emulator for Multiple observable ANalysis in extended cosmological TheorIeS
 =====================================================================================
 
@@ -74,44 +78,12 @@ Or you can directly clone our public `repository <https://gitlab.obspm.fr/e-mant
 
 It requires a python version >= 3.10.
 
-Post-installation
------------------
-
-The emulators shipped with e-MANTIS need to be trained before they can provide predictions.
-This will be done automatically and on-the-fly the first time you use each emulator.
-
-Alternatively, we provide a CLI utility to train all emulators at once::
-
-  emantis-train
-
-This should not take more than a couple of minutes.
-
-The trained emulators are saved to disk, using the pickle protocol, ready for future usage.
-Major changes in the versions of python, e-MANTIS, or some of its main dependencies, such as numpy, scipy, or scikit-learn, might break the compatibility with previously trained emulators.
-In such case, the emulators will be retrained automatically on-the-fly.
-You can also retrain them manually using the CLI utility.
-
 Documentation and usage
 -----------------------
 
 The up-to-date documentation for this project (with code examples and a detailed API) is available `here <https://e-mantis.pages.obspm.fr/e-mantis>`_.
 
-Licence
+License
 -------
 
-Copyright (C) 2023 Iñigo Sáez-Casares
-
-inigo.saez-casares@obspm.fr
-
-This program is free software: you can redistribute it and/or modify
-it under the terms of the GNU General Public License as published by
-the Free Software Foundation, either version 3 of the License, or
-(at your option) any later version.
-
-This program is distributed in the hope that it will be useful,
-but WITHOUT ANY WARRANTY; without even the implied warranty of
-MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
-GNU General Public License for more details.
-
-You should have received a copy of the GNU General Public License
-along with this program.  If not, see https://www.gnu.org/licenses/.
+e-MANTIS is distributed under the GNU General Public License v3.0 or later (GPL-3.0-or-later).

{emantis-1.2.2 → emantis-1.4.0}/README.rst

@@ -1,4 +1,4 @@
-|DOI|_ |PyPI|_ |release|_ |pipeline|_
+|DOI|_ |PyPI|_ |release|_ |pipeline|_ |coverage|_
 
 .. |DOI| image:: https://zenodo.org/badge/DOI/10.5281/zenodo.7738362.svg
 .. _DOI: https://doi.org/10.5281/zenodo.7738362
@@ -12,6 +12,9 @@
 .. |pipeline| image:: https://gitlab.obspm.fr/e-mantis/e-mantis/badges/main/pipeline.svg
 .. _pipeline: https://gitlab.obspm.fr/e-mantis/e-mantis/-/commits/main
 
+.. |coverage| image:: https://gitlab.obspm.fr/e-mantis/e-mantis/badges/main/coverage.svg
+.. _coverage: https://gitlab.obspm.fr/e-mantis/e-mantis/-/commits/main
+
 e-MANTIS: Emulator for Multiple observable ANalysis in extended cosmological TheorIeS
 =====================================================================================
 
@@ -51,44 +54,12 @@ Or you can directly clone our public `repository <https://gitlab.obspm.fr/e-mant
 
 It requires a python version >= 3.10.
 
-Post-installation
------------------
-
-The emulators shipped with e-MANTIS need to be trained before they can provide predictions.
-This will be done automatically and on-the-fly the first time you use each emulator.
-
-Alternatively, we provide a CLI utility to train all emulators at once::
-
-  emantis-train
-
-This should not take more than a couple of minutes.
-
-The trained emulators are saved to disk, using the pickle protocol, ready for future usage.
-Major changes in the versions of python, e-MANTIS, or some of its main dependencies, such as numpy, scipy, or scikit-learn, might break the compatibility with previously trained emulators.
-In such case, the emulators will be retrained automatically on-the-fly.
-You can also retrain them manually using the CLI utility.
-
 Documentation and usage
 -----------------------
 
 The up-to-date documentation for this project (with code examples and a detailed API) is available `here <https://e-mantis.pages.obspm.fr/e-mantis>`_.
 
-Licence
+License
 -------
 
-Copyright (C) 2023 Iñigo Sáez-Casares
-
-inigo.saez-casares@obspm.fr
-
-This program is free software: you can redistribute it and/or modify
-it under the terms of the GNU General Public License as published by
-the Free Software Foundation, either version 3 of the License, or
-(at your option) any later version.
-
-This program is distributed in the hope that it will be useful,
-but WITHOUT ANY WARRANTY; without even the implied warranty of
-MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
-GNU General Public License for more details.
-
-You should have received a copy of the GNU General Public License
-along with this program.  If not, see https://www.gnu.org/licenses/.
+e-MANTIS is distributed under the GNU General Public License v3.0 or later (GPL-3.0-or-later).

{emantis-1.2.2 → emantis-1.4.0}/pyproject.toml

@@ -1,23 +1,25 @@
 [project]
 authors = [
-    { name = "Iñigo Sáez Casares", email = "inigo.saez-casares@obspm.fr" },
+    { name = "Iñigo Sáez-Casares", email = "inigo.saez-casares@obspm.fr" },
 ]
-requires-python = "<3.15,>=3.10"
+license = "GPL-3.0-or-later"
+requires-python = ">=3.10"
 dependencies = [
     "h5py <4.0,>=3.8",
-    "scikit-learn <2,>=1",
+    "scikit-learn >=1.5,<2",
     "numpy <3.0,>=1.24",
     "pydantic <3.0,>=2.6",
     "tomli <3,>=2; python_version < '3.11'",
     "joblib <2.0.0,>=1.3.2",
+    "scipy>=1.15,<2",
+    "threadpoolctl <4,>=3",
 ]
 name = "emantis"
-version = "1.2.2"
+version = "1.4.0"
 description = "A cosmological emulator for nonlinear large-scale structure formation studies in alternative dark energy and gravity theories."
 readme = "README.rst"
 classifiers = [
     "Programming Language :: Python :: 3",
-    "License :: OSI Approved :: GNU General Public License v3 (GPLv3)",
     "Operating System :: OS Independent",
     "Intended Audience :: Science/Research",
     "Topic :: Scientific/Engineering :: Physics",
@@ -30,9 +32,6 @@ keywords = [
     "modified gravity",
 ]
 
-[project.license]
-text = "GPL-3.0-or-later"
-
 [project.urls]
 repository = "https://gitlab.obspm.fr/e-mantis/e-mantis.git"
 documentation = "https://e-mantis.pages.obspm.fr/e-mantis/index.html"
@@ -40,27 +39,9 @@ documentation = "https://e-mantis.pages.obspm.fr/e-mantis/index.html"
 [project.scripts]
 emantis-train = "emantis._cli:train_all_emulators"
 
-[tool.pdm.build]
-includes = []
-excludes = [
-    "src/emantis/data/emulator_storage*",
-]
-
-[tool.uv]
-default-groups = [
-    "dev",
-    "docs",
-]
-
-[tool.pytest.ini_options]
-addopts = "-vv --cov"
-
-[tool.pydocstyle]
-convention = "numpy"
-
 [build-system]
 requires = [
-    "pdm-backend",
+    "pdm-backend>=2.4",
 ]
 build-backend = "pdm.backend"
 
@@ -68,16 +49,38 @@ build-backend = "pdm.backend"
 dev = [
     "ipython",
     "matplotlib",
-    "jupyterlab <4.0,>=3.6",
-    "pytest>=8.4.1",
-    "pytest-cov>=6",
-    "pytest-pydocstyle>=2.4.0",
+    "jupyterlab",
     "pre-commit>=4.5.0",
 ]
 docs = [
-    "sphinx",
+    "sphinx>=7",
     "sphinx-copybutton",
-    "sphinx-rtd-theme",
     "myst-nb",
-    "sphinx-multiversion>=0.2.4",
+    "furo>=2025.9.25",
+    "matplotlib",
+]
+test = [
+    "pytest>=8.4.1",
+    "pytest-cov>=6",
+]
+
+[tool.uv]
+default-groups = [
+    "dev",
+    "docs",
+    "test",
+]
+
+[tool.pytest.ini_options]
+addopts = "-vv --strict-markers"
+
+[tool.coverage.run]
+source = [
+    "emantis",
+]
+
+[tool.coverage.paths]
+source = [
+    "src/emantis",
+    "*/site-packages/emantis",
 ]

emantis-1.4.0/src/emantis/__init__.py

@@ -0,0 +1,37 @@
+"""Emulators of the large-scale structure formation in alternative cosmologies.
+
+e-MANTIS provides theoretical predictions for the nonlinear large-scale structure
+formation in alternative dark energy and gravity theories.
+It uses Gaussian processes to interpolate between the outputs
+of high resolution cosmological N-body simulations.
+It supports multiple cosmological models and observables,
+and is divided into modules, each one focusing on a type of observable.
+
+Available modules
+-----------------
+matter_power_spectrum
+    Emulators for the matter power spectrum.
+halo_mass_function
+    Emulator for the halo mass function.
+custom_emulators
+    Build, save and load your own emulators.
+powerspectrum_matter
+    Emulators for the matter power spectrum.
+    Deprecated, use matter_power_spectrum instead.
+"""
+
+from importlib.metadata import version
+
+from emantis import custom_emulators, halo_mass_function, matter_power_spectrum
+from emantis.custom_emulators import load_emulator
+from emantis.powerspectrum_matter import FofrBoost
+
+__version__ = version("emantis")
+
+__all__ = [
+    "FofrBoost",
+    "custom_emulators",
+    "halo_mass_function",
+    "load_emulator",
+    "matter_power_spectrum",
+]