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pyproject.toml
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pyproject.toml
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# Project metadata
[project]
name = "rest_VariantValidator"
dynamic = ["version"] # Use dynamic version based on the setuptools_scm plugin
description = "REST API interface for VariantValidator"
license = {file = "LICENSE.txt"} # Specify the license file
authors = [{name = "VariantValidator Contributors", email = "admin@variantvalidator.org"}] # Author information
readme = "README.md" # Specify the README file
keywords = ["bioinformatics",
"computational biology",
"genome variants",
"genome variation",
"genomic variants",
"genomic variation",
"genomics",
"hgvs",
"HGVS",
"sequencevariants"] # Keywords associated with the project
requires-python = ">=3.6" # Minimum required Python version
# List of project dependencies
dependencies = [
# Dependencies that will be installed via PyPi
"httplib2>=0.9.0",
"configparser>=3.5.0",
"dicttoxml==1.7.16",
"gunicorn==21.2.0",
"flask-restx==1.1.0",
"Flask==2.3.2",
"Jinja2==3.1.2",
"Werkzeug==2.3.7",
"MarkupSafe==2.1.3",
"flask-cors==4.0.0",
"flask_httpauth==4.8.0",
"flask_limiter==3.5.1",
# Dependencies from other repositories, specified with their repository URLs and package names
"vvhgvs@git+https://github.com/openvar/vv_hgvs@master",
"VariantFormatter@git+https://github.com/openvar/variantFormatter@master",
"VariantValidator@git+https://github.com/openvar/variantValidator@master"
]
# Project classifiers
classifiers = [
"Development Status :: 5 - Production/Stable",
"Intended Audience :: Developers",
"Topic :: Software Development :: Build Tools",
"License :: OSI Approved :: AGPL-3.0",
"Programming Language :: Python :: 3.6",
"Programming Language :: Python :: 3.7",
"Programming Language :: Python :: 3.8",
"Programming Language :: Python :: 3.9",
"Programming Language :: Python :: 3.10",
"Programming Language :: Python :: 3.11"
]
# URLs associated with the project
[project.urls]
"Homepage" = "https://variantvalidator.org/"
"Source" = "https://github.com/openvar/rest_variantValidator"
"Bug Reports" = "https://github.com/openvar/variantValidator/issues"
"Say Thanks!" = "https://www.buymeacoffee.com/VariantValidatr"
# Scripts and data files
[scripts]
# Define scripts that will be available after installation, with their entry points
# After install, these scripts will be accessible for the user to run
update_vdb = "bin/update_vdb:main"
variant_validator = "bin/variant_validator:main"
vv_configure = "bin/vv_configure:main"
# Specify additional data files included in the distribution
data = [
{ include = "configuration", glob = "configuration/empty_vv_db.sql" }
]
# Setuptools configuration
[tool.setuptools]
# Specify the main Python modules to be included in the distribution
py-modules = ["rest_VariantValidator"]
# Setuptools SCM configuration
[tool.setuptools_scm]
# Setuptools package discovery configuration
[tool.setuptools.packages.find]
# Define where to look for packages (root directory)
where = ["."]
# Specify patterns to include and exclude for package discovery
include = ["rest_VariantValidator*"]
exclude = ["batch", "locust"]
# Build system configuration
[build-system]
# Specify required dependencies for the build system
requires = ["setuptools>=45", "setuptools_scm[toml]>=6.2"]
# Specify the build backend to use
build-backend = "setuptools.build_meta"