pyproject.toml

#' https://setuptools.readthedocs.io/en/latest/setuptools.html#metadata


# https://setuptools.pypa.io/en/latest/references/keywords.html

### LAYOUT:
#' project_root/                 # Project root: 'plotastic'
#' ├── .gitattributes
#' ├── .gitignore
#' ├── LICENSE
#' ├── MANIFEST.in
#' ├── README.md
#' ├── pyproject.toml
#' ├── requirements.txt
#' ├── (setup.cfg) # No longer needed, but still supported
#' ├── (paper.md) # For publication
#' ├── ...
#' └── src/                      # Source root
#'    └── package/               # Package root: 'plotastic'
#'        ├── __init__.py
#'        ├── .vscode
#'        ├── py.typed
#'        ├── ...
#'        ├── (module.py)
#'        ├── subpkg1/           # Subpackage root: 'plotastic.dimensions'
#'        │   ├── __init__.py
#'        │   ├── ...
#'        │   └── module1.py
#'        └── subpkg2/           # Subpackage root: 'plotastic.plotting'
#'            ├── __init__.py
#'            ├── ...
#'            └── module2.py

[build-system] # =======================================================
requires = ["setuptools", "setuptools-scm"]
build-backend = "setuptools.build_meta"


[project] # ============================================================
name = "imagep"
version = "0.1.0" # ' <major>.<minor>.<patch>.<build_number>
authors = [{ name = "Martin Kuric", email = "martin.kur4@gmail.com" }]
description = "Scientific image processing and analysis pipelines for Python"
readme = "README.md"
license = { file = "LICENSE" } # ' or { text = "GPLv3" }
keywords = [
    "plotting",
    # "statistics",
    "data analysis",
    # "data visualization",
    # "data science",
    "data",
    "science",
    "visualization",
    "microscopy",
    "SHG",
]
classifiers = [
    "License :: OSI Approved :: GNU General Public License v3 (GPLv3)",
    # "Development Status :: 5 - Production/Stable",
    "Framework :: IPython",
    "Framework :: Jupyter",
    "Intended Audience :: Science/Research",
    "Intended Audience :: Education",
    "Intended Audience :: Healthcare Industry",
    # "Intended Audience :: Financial and Insurance Industry",
    "Topic :: Scientific/Engineering",
    "Topic :: Scientific/Engineering :: Visualization",
    "Topic :: Scientific/Engineering :: Information Analysis",
    "Topic :: Scientific/Engineering :: Bio-Informatics",
    "Programming Language :: Python :: 3.11",
]
### Dependencies
#' Specify version only if concrete incompatibilities exist
requires-python = ">=3.11"
dependencies = [
    "ipython",
    "ipywidgets",
    #* Core
    "numpy",
    "pandas==1.5.3", #!! pingouin Not working with pandas 2.0 yet
    # * Plotting
    "matplotlib",
    "seaborn<=0.12.2", #!! 0.13 has issues with hue
    # "pyimagej",
    # "plotly",
    # "nbformat", #> required by plotly
    #* Statistics
    "scipy",
    #* Image processing
    "pyvista",
    "trame",         #' required for interactive pyvista plots
    "trame_vtk",
    "trame-vuetify",
    "napari[all]",   #!! python -m pip install "napari[all]"
    "scikit-image",
    "scikit-learn",
    "PyWavelets",    #' Required by skimage for denoising
    # "opencv-python",

    # "statannot",   #' Superseded by statannotations
    #     "statannotations",
    #     "pingouin",
    #     #* Excel
    "openpyxl",      #' Optional for Pandas, but error when not installed
    "xlsxwriter",    #' For saving results to excel
    #* Misc
    "joblib", #' Caching
    #     "colour",      #' For custom colour maps
    #     "ipynbname",   #' Used by utils
    #     "icecream",    #' Better than print (and maybe later logging)
    #* Security issues
    "aiohttp>=3.9.2",
]

### Dynamic fields
# dynamic = ["version"]


[project.optional-dependencies] # ======================================
### Install with:
# '   $ pip install sampleproject[dev]
dev = [
    "pytest",
    "ipytest",
    "pytest-cov",   # * Displays how much of code was covered by testing
    "pytest-xdist", # * Parallel testing
    "nbconvert",    # * For converting notebooks to markdown
    "build",        # * For building the package into dist
    "twine",        # * For uploading to PyPI
]


[project.urls] # =======================================================
# "Homepage" = "https://github.com/markur4/plotastic"
# "Documentation" = "https://github.com/markur4/plotastic"
# "Source Code" = "https://github.com/markur4/plotastic"
# "Bug Reports" = "https://github.com/markur4/plotastic/issues"
# "Funding" = "https://donate.pypi.org"


[tool.setuptools] # ====================================================
# package-data = { "example_data" = ["*.xlsx"]}
include-package-data = true # ? Defaults to true, should I keep this?

[tool.setuptools.packages.find]
where = ["src"] # ? it also worked without this..? 

### Package-data handled in MANIFEST.in
# [tool.setuptools.exclude-package-data]
# plotastic = [".vscode"]

# [tool.setuptools.package-data]
# "*" = ["LICENSE"]
# plotastic = ["example_data/*.xlsx"]