arviz 0.23.1__tar.gz → 1.0.0rc0__tar.gz

{arviz-0.23.1 → arviz-1.0.0rc0}/LICENSE

@@ -199,4 +199,3 @@
    WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
    See the License for the specific language governing permissions and
    limitations under the License.
-

arviz-1.0.0rc0/PKG-INFO

@@ -0,0 +1,182 @@
+Metadata-Version: 2.4
+Name: arviz
+Version: 1.0.0rc0
+Summary: Expose features from _ArviZverse_ refactored packages together in the ``arviz`` namespace.
+Author-email: ArviZ team <arvizdevs@gmail.com>
+Requires-Python: >=3.12
+Description-Content-Type: text/markdown
+Classifier: Development Status :: 4 - Beta
+Classifier: Intended Audience :: Developers
+Classifier: Intended Audience :: Science/Research
+Classifier: Intended Audience :: Education
+Classifier: License :: OSI Approved :: Apache Software License
+Classifier: Operating System :: OS Independent
+Classifier: Programming Language :: Python
+Classifier: Programming Language :: Python :: 3
+Classifier: Programming Language :: Python :: 3.12
+Classifier: Programming Language :: Python :: 3.13
+Classifier: Programming Language :: Python :: 3.14
+License-File: LICENSE
+Requires-Dist: arviz_base >=0.7.0
+Requires-Dist: arviz_stats[xarray] >=0.7.0
+Requires-Dist: arviz_plots >=0.7.0
+Requires-Dist: arviz_plots[bokeh] ; extra == "bokeh"
+Requires-Dist: build ; extra == "check"
+Requires-Dist: pre-commit ; extra == "check"
+Requires-Dist: h5netcdf ; extra == "doc"
+Requires-Dist: jupyter-sphinx ; extra == "doc"
+Requires-Dist: matplotlib ; extra == "doc"
+Requires-Dist: myst-parser[linkify] ; extra == "doc"
+Requires-Dist: myst-nb ; extra == "doc"
+Requires-Dist: pydata-sphinx-theme>=0.13 ; extra == "doc"
+Requires-Dist: sphinx>=5 ; extra == "doc"
+Requires-Dist: sphinx-copybutton ; extra == "doc"
+Requires-Dist: sphinx-design ; extra == "doc"
+Requires-Dist: sphinx-notfound-page ; extra == "doc"
+Requires-Dist: sphinxcontrib-youtube ; extra == "doc"
+Requires-Dist: arviz_base[h5netcdf] ; extra == "h5netcdf"
+Requires-Dist: arviz_plots[matplotlib] ; extra == "matplotlib"
+Requires-Dist: arviz_base[netcdf4] ; extra == "netcdf4"
+Requires-Dist: arviz_plots[plotly] ; extra == "plotly"
+Requires-Dist: pytest ; extra == "test"
+Requires-Dist: arviz_base[zarr] ; extra == "zarr"
+Project-URL: documentation, https://python.arviz.org
+Project-URL: funding, https://opencollective.com/arviz
+Project-URL: source, https://github.com/arviz-devs/arviz
+Project-URL: tracker, https://github.com/arviz-devs/arviz/issues
+Provides-Extra: bokeh
+Provides-Extra: check
+Provides-Extra: doc
+Provides-Extra: h5netcdf
+Provides-Extra: matplotlib
+Provides-Extra: netcdf4
+Provides-Extra: plotly
+Provides-Extra: test
+Provides-Extra: zarr
+
+<img src="https://raw.githubusercontent.com/arviz-devs/arviz-project/main/arviz_logos/ArviZ.png#gh-light-mode-only" width=200></img>
+<img src="https://raw.githubusercontent.com/arviz-devs/arviz-project/main/arviz_logos/ArviZ_white.png#gh-dark-mode-only" width=200></img>
+
+[![PyPI version](https://badge.fury.io/py/arviz.svg)](https://badge.fury.io/py/arviz)
+[![DOI](http://joss.theoj.org/papers/10.21105/joss.01143/status.svg)](https://doi.org/10.21105/joss.01143) [![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.2540945.svg)](https://doi.org/10.5281/zenodo.2540945)
+[![Powered by NumFOCUS](https://img.shields.io/badge/powered%20by-NumFOCUS-orange.svg?style=flat&colorA=E1523D&colorB=007D8A)](https://numfocus.org)
+
+ArviZ (pronounced "AR-_vees_") is a Python package for exploratory analysis of Bayesian models. It includes functions for posterior analysis, data storage, model checking, comparison and diagnostics.
+
+### ArviZ in other languages
+ArviZ also has a Julia wrapper available [ArviZ.jl](https://julia.arviz.org/).
+
+## Documentation
+
+The ArviZ documentation can be found in the [official docs](https://python.arviz.org).
+Here are some quick links for common scenarios:
+
+* First time Bayesian modelers and ArviZ users: [EABM book](https://arviz-devs.github.io/EABM/)
+* First time ArviZ users, already familiar with Bayesian modeling: [overview notebook](https://python.arviz.org/projects/plots/en/latest/tutorials/overview.html) or [example gallery](https://python.arviz.org/projects/plots/en/latest/gallery/index.html)
+* ArviZ 0.x user: [migration guide](https://python.arviz.org/en/latest/user_guide/migration_guide.html)
+* ArviZ-verse documentation:
+  - [arviz-base](https://python.arviz.org/projects/base/en/latest/)
+  - [arviz-stats](https://python.arviz.org/projects/stats/en/latest/)
+  - [arviz-plots](https://python.arviz.org/projects/plots/en/latest/)
+
+
+## Installation
+
+### Stable
+ArviZ is available for installation from [PyPI](https://pypi.org/project/arviz/).
+The latest stable version can be installed using pip:
+
+```
+pip install "arviz[preview]"
+```
+
+ArviZ is also available through [conda-forge](https://anaconda.org/conda-forge/arviz).
+
+```
+conda install -c conda-forge arviz arviz-plots
+```
+
+### Development
+The latest development version can be installed from the main branch using pip:
+
+```
+pip install git+git://github.com/arviz-devs/arviz.git
+```
+
+Another option is to clone the repository and install using git and setuptools:
+
+```
+git clone https://github.com/arviz-devs/arviz.git
+cd arviz
+python setup.py install
+```
+
+-------------------------------------------------------------------------------
+## [Gallery](https://python.arviz.org/en/latest/examples/index.html)
+
+<p>
+<table>
+<tr>
+
+  <td>
+
+  [![plot_rank_dist example](./docs/source/_miniatures/plot_rank_dist.png)](https://arviz-plots.readthedocs.io/en/stable/api/generated/arviz_plots.plot_rank_dist.html)
+
+  </td>
+
+  <td>
+
+  [![plot_forest example with extra ESS column](./docs/source/_miniatures/plot_forest_ess.png)](https://arviz-plots.readthedocs.io/en/stable/api/generated/arviz_plots.plot_forest.html)
+
+  </td>
+
+</tr>
+</table>
+<div>
+
+  <a href="https://python.arviz.org/projects/plots/en/latest/gallery/index.html">And more...</a>
+</div>
+
+
+## Citation
+
+
+If you use ArviZ and want to cite it please use [![DOI](http://joss.theoj.org/papers/10.21105/joss.01143/status.svg)](https://doi.org/10.21105/joss.01143)
+
+Here is the citation in BibTeX format
+
+```
+@article{arviz_2019,
+  doi = {10.21105/joss.01143},
+  url = {https://doi.org/10.21105/joss.01143},
+  year = {2019},
+  publisher = {The Open Journal},
+  volume = {4},
+  number = {33},
+  pages = {1143},
+  author = {Ravin Kumar and Colin Carroll and Ari Hartikainen and Osvaldo Martin},
+  title = {ArviZ a unified library for exploratory analysis of Bayesian models in Python},
+  journal = {Journal of Open Source Software}
+}
+```
+
+
+## Contributions
+ArviZ is a community project and welcomes contributions.
+Additional information can be found in the [contributing guide](https://python.arviz.org/en/latest/contributing/index.html)
+
+
+## Code of Conduct
+ArviZ wishes to maintain a positive community. Additional details
+can be found in the [Code of Conduct](https://www.arviz.org/en/latest/CODE_OF_CONDUCT.html)
+
+## Donations
+ArviZ is a non-profit project under NumFOCUS umbrella. If you want to support ArviZ financially, you can donate [here](https://numfocus.org/donate-to-arviz).
+
+## Sponsors and Institutional Partners
+[![Aalto University](https://raw.githubusercontent.com/arviz-devs/arviz-project/refs/heads/main/cards/Aalto-black-text.png)](https://www.aalto.fi/en)
+[![FCAI](https://raw.githubusercontent.com/arviz-devs/arviz-project/refs/heads/main/cards/FCAI.png)](https://fcai.fi/)
+[![NumFOCUS](https://raw.githubusercontent.com/arviz-devs/arviz-project/refs/heads/main/sphinx/NumFocus.png)](https://numfocus.org)
+
+[The ArviZ project website](https://www.arviz.org/en/latest/sponsors_partners.html) has more information about each sponsor and the support they provide.
+

arviz-1.0.0rc0/README.md

@@ -0,0 +1,125 @@
+<img src="https://raw.githubusercontent.com/arviz-devs/arviz-project/main/arviz_logos/ArviZ.png#gh-light-mode-only" width=200></img>
+<img src="https://raw.githubusercontent.com/arviz-devs/arviz-project/main/arviz_logos/ArviZ_white.png#gh-dark-mode-only" width=200></img>
+
+[![PyPI version](https://badge.fury.io/py/arviz.svg)](https://badge.fury.io/py/arviz)
+[![DOI](http://joss.theoj.org/papers/10.21105/joss.01143/status.svg)](https://doi.org/10.21105/joss.01143) [![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.2540945.svg)](https://doi.org/10.5281/zenodo.2540945)
+[![Powered by NumFOCUS](https://img.shields.io/badge/powered%20by-NumFOCUS-orange.svg?style=flat&colorA=E1523D&colorB=007D8A)](https://numfocus.org)
+
+ArviZ (pronounced "AR-_vees_") is a Python package for exploratory analysis of Bayesian models. It includes functions for posterior analysis, data storage, model checking, comparison and diagnostics.
+
+### ArviZ in other languages
+ArviZ also has a Julia wrapper available [ArviZ.jl](https://julia.arviz.org/).
+
+## Documentation
+
+The ArviZ documentation can be found in the [official docs](https://python.arviz.org).
+Here are some quick links for common scenarios:
+
+* First time Bayesian modelers and ArviZ users: [EABM book](https://arviz-devs.github.io/EABM/)
+* First time ArviZ users, already familiar with Bayesian modeling: [overview notebook](https://python.arviz.org/projects/plots/en/latest/tutorials/overview.html) or [example gallery](https://python.arviz.org/projects/plots/en/latest/gallery/index.html)
+* ArviZ 0.x user: [migration guide](https://python.arviz.org/en/latest/user_guide/migration_guide.html)
+* ArviZ-verse documentation:
+  - [arviz-base](https://python.arviz.org/projects/base/en/latest/)
+  - [arviz-stats](https://python.arviz.org/projects/stats/en/latest/)
+  - [arviz-plots](https://python.arviz.org/projects/plots/en/latest/)
+
+
+## Installation
+
+### Stable
+ArviZ is available for installation from [PyPI](https://pypi.org/project/arviz/).
+The latest stable version can be installed using pip:
+
+```
+pip install "arviz[preview]"
+```
+
+ArviZ is also available through [conda-forge](https://anaconda.org/conda-forge/arviz).
+
+```
+conda install -c conda-forge arviz arviz-plots
+```
+
+### Development
+The latest development version can be installed from the main branch using pip:
+
+```
+pip install git+git://github.com/arviz-devs/arviz.git
+```
+
+Another option is to clone the repository and install using git and setuptools:
+
+```
+git clone https://github.com/arviz-devs/arviz.git
+cd arviz
+python setup.py install
+```
+
+-------------------------------------------------------------------------------
+## [Gallery](https://python.arviz.org/en/latest/examples/index.html)
+
+<p>
+<table>
+<tr>
+
+  <td>
+
+  [![plot_rank_dist example](./docs/source/_miniatures/plot_rank_dist.png)](https://arviz-plots.readthedocs.io/en/stable/api/generated/arviz_plots.plot_rank_dist.html)
+
+  </td>
+
+  <td>
+
+  [![plot_forest example with extra ESS column](./docs/source/_miniatures/plot_forest_ess.png)](https://arviz-plots.readthedocs.io/en/stable/api/generated/arviz_plots.plot_forest.html)
+
+  </td>
+
+</tr>
+</table>
+<div>
+
+  <a href="https://python.arviz.org/projects/plots/en/latest/gallery/index.html">And more...</a>
+</div>
+
+
+## Citation
+
+
+If you use ArviZ and want to cite it please use [![DOI](http://joss.theoj.org/papers/10.21105/joss.01143/status.svg)](https://doi.org/10.21105/joss.01143)
+
+Here is the citation in BibTeX format
+
+```
+@article{arviz_2019,
+  doi = {10.21105/joss.01143},
+  url = {https://doi.org/10.21105/joss.01143},
+  year = {2019},
+  publisher = {The Open Journal},
+  volume = {4},
+  number = {33},
+  pages = {1143},
+  author = {Ravin Kumar and Colin Carroll and Ari Hartikainen and Osvaldo Martin},
+  title = {ArviZ a unified library for exploratory analysis of Bayesian models in Python},
+  journal = {Journal of Open Source Software}
+}
+```
+
+
+## Contributions
+ArviZ is a community project and welcomes contributions.
+Additional information can be found in the [contributing guide](https://python.arviz.org/en/latest/contributing/index.html)
+
+
+## Code of Conduct
+ArviZ wishes to maintain a positive community. Additional details
+can be found in the [Code of Conduct](https://www.arviz.org/en/latest/CODE_OF_CONDUCT.html)
+
+## Donations
+ArviZ is a non-profit project under NumFOCUS umbrella. If you want to support ArviZ financially, you can donate [here](https://numfocus.org/donate-to-arviz).
+
+## Sponsors and Institutional Partners
+[![Aalto University](https://raw.githubusercontent.com/arviz-devs/arviz-project/refs/heads/main/cards/Aalto-black-text.png)](https://www.aalto.fi/en)
+[![FCAI](https://raw.githubusercontent.com/arviz-devs/arviz-project/refs/heads/main/cards/FCAI.png)](https://fcai.fi/)
+[![NumFOCUS](https://raw.githubusercontent.com/arviz-devs/arviz-project/refs/heads/main/sphinx/NumFocus.png)](https://numfocus.org)
+
+[The ArviZ project website](https://www.arviz.org/en/latest/sponsors_partners.html) has more information about each sponsor and the support they provide.

arviz-1.0.0rc0/pyproject.toml

@@ -0,0 +1,92 @@
+[build-system]
+requires = ["flit_core >=3.4,<4"]
+build-backend = "flit_core.buildapi"
+
+[project]
+name = "arviz"
+readme = "README.md"
+requires-python = ">=3.12"
+license = {file = "LICENSE"}
+authors = [
+    {name = "ArviZ team", email = "arvizdevs@gmail.com"}
+]
+classifiers = [
+    "Development Status :: 4 - Beta",
+    "Intended Audience :: Developers",
+    "Intended Audience :: Science/Research",
+    "Intended Audience :: Education",
+    "License :: OSI Approved :: Apache Software License",
+    "Operating System :: OS Independent",
+    "Programming Language :: Python",
+    "Programming Language :: Python :: 3",
+    "Programming Language :: Python :: 3.12",
+    "Programming Language :: Python :: 3.13",
+    "Programming Language :: Python :: 3.14",
+]
+dynamic = ["version", "description"]
+dependencies = [
+  "arviz_base >=0.7.0",
+  "arviz_stats[xarray] >=0.7.0",
+  "arviz_plots >=0.7.0",
+]
+
+[tool.flit.module]
+name = "arviz"
+
+[project.urls]
+source = "https://github.com/arviz-devs/arviz"
+tracker = "https://github.com/arviz-devs/arviz/issues"
+documentation = "https://python.arviz.org"
+funding = "https://opencollective.com/arviz"
+
+[project.optional-dependencies]
+# user facing optional blocks
+netcdf4 = ["arviz_base[netcdf4]"]
+h5netcdf = ["arviz_base[h5netcdf]"]
+zarr = ["arviz_base[zarr]"]
+matplotlib = ["arviz_plots[matplotlib]"]
+bokeh = ["arviz_plots[bokeh]"]
+plotly = ["arviz_plots[plotly]"]
+
+# dev related blocks
+doc = [
+    "h5netcdf",
+    "jupyter-sphinx",
+    "matplotlib",
+    "myst-parser[linkify]",
+    "myst-nb",
+    "pydata-sphinx-theme>=0.13",
+    "sphinx>=5",
+    "sphinx-copybutton",
+    "sphinx-design",
+    "sphinx-notfound-page",
+    "sphinxcontrib-youtube",
+]
+test = ["pytest"]
+check = ["build", "pre-commit"]
+
+[tool.ruff]
+line-length = 100
+
+[tool.ruff.lint]
+select = [
+    "F",  # Pyflakes
+    "E",  # Pycodestyle
+    "W",  # Pycodestyle
+    "D",  # pydocstyle
+    "NPY", # numpy specific rules
+    "UP",  # pyupgrade
+    "I",  # isort
+    "PL",  # Pylint
+    "TID",  # Absolute imports
+]
+
+[tool.ruff.lint.per-file-ignores]
+"src/arviz/__init__.py*" = ["I", "F401", "E402", "F403"]
+"docs/source/**/*.ipynb" = ["D", "E", "F", "I", "NPY", "PL", "TID", "UP", "W"]
+"docs/source/conf.py" = ["D"]
+"tests/**/*" = ["D", "PLR2004", "TID252"]
+
+[tool.pytest.ini_options]
+filterwarnings = ["error"]
+testpaths = ["tests"]

arviz-1.0.0rc0/src/arviz/__init__.py

@@ -0,0 +1,71 @@
+# pylint: disable=unused-import,unused-wildcard-import,wildcard-import,invalid-name
+"""Expose features from _ArviZverse_ refactored packages together in the ``arviz`` namespace."""
+
+import logging
+import re
+
+_log = logging.getLogger(__name__)
+
+info = ""
+
+try:
+    from arviz_base import *
+    import arviz_base as base
+
+    _status = (
+        f"arviz_base {base.__version__} available, "
+        "exposing its functions as part of the `arviz` namespace"
+    )
+    _log.info(_status)
+    del base
+except ModuleNotFoundError as err:
+    raise ImportError("arviz's dependency arviz_base is not installed", name="arviz") from err
+
+info += _status + "\n"
+
+try:
+    from arviz_stats import *
+    import arviz_stats as stats
+
+    # TODO: remove patch. 0.7 version of arviz-stats didn't expose the __version__ attribute
+    _status = (
+        f"arviz_stats {getattr(stats, '__version__', '0.7.0')} available, "
+        "exposing its functions as part of the `arviz` namespace"
+    )
+    _log.info(_status)
+    del stats
+except ModuleNotFoundError as err:
+    raise ImportError("arviz's dependency arviz_stats is not installed", name="arviz") from err
+
+info += _status + "\n"
+
+try:
+    from arviz_plots import *
+    import arviz_plots as plots
+
+    _status = (
+        f"arviz_plots {plots.__version__} available, "
+        "exposing its functions as part of the `arviz` namespace"
+    )
+    _log.info(_status)
+    del plots
+except ModuleNotFoundError as err:
+    raise ImportError("arviz's dependency arviz_plots is not installed", name="arviz") from err
+
+info += _status
+
+# define version last so it isn't overwritten by the respective attribute in the imported libraries
+__version__ = "1.0.0rc0"
+
+info = f"Status information for ArviZ {__version__}\n\n{info}"
+
+pat = re.compile(r"arviz_(base|stats|plots)\s([0-9]+\.[0-9]+)")
+matches = pat.findall(info)
+if any(matches[0][1] != match[1] for match in matches[1:]):
+    raise ImportError(
+        "Versions of arviz-xyz packages don't match to the minor version. "
+        f"The versions found are: {matches}"
+    )
+
+# clean namespace
+del logging, matches, pat, re, _status