pyproject.toml

[tool.poetry]
name = "megaqc"
version = "0.3.0"
description = "Collect and visualise data across multiple MultiQC runs"
authors = ["Phil Ewels"]
license = "GPLv3"
readme = "README.rst"
keywords = [
        "bioinformatics",
        "biology",
        "sequencing",
        "NGS",
        "next generation sequencing",
        "quality control",
]
homepage = "https://megaqc.info/"
repository = "https://github.com/MultiQC/MegaQC"
documentation = "https://megaqc.info/docs/index.html"
classifiers = [
        "Development Status :: 4 - Beta",
        "Environment :: Console",
        "Environment :: Web Environment",
        "Intended Audience :: Science/Research",
        "License :: OSI Approved :: GNU General Public License v3 (GPLv3)",
        "Natural Language :: English",
        "Operating System :: MacOS :: MacOS X",
        "Operating System :: POSIX",
        "Operating System :: Unix",
        "Programming Language :: Python",
        "Programming Language :: JavaScript",
        "Topic :: Scientific/Engineering",
        "Topic :: Scientific/Engineering :: Bio-Informatics",
        "Topic :: Scientific/Engineering :: Visualization",
]
packages = [{ include = "megaqc" }]

[tool.poetry.dependencies]
python = "^3.8"
argon2-cffi = "20.1"
click = "^7.0"
Flask-APScheduler = "^1.11"
Flask-Caching = "^1.9"
Flask-DebugToolbar = "^0.11"
Flask-Login = "^0.5"
Flask-SQLAlchemy = "^2.4"
Flask-WTF = "^0.14"
Flask = "^1.1"
future = "^0.18"
itsdangerous = "^1.1"
Jinja2 = "^2.11"
markdown = "^3.3"
multiqc = "^1.9"
numpy = "^1.14"
passlib = "^1.7"
plotly = ">2,<5"
pyyaml = "^5.1"
SQLAlchemy = "^1.1"
Werkzeug = ">0.14,<2.0"
WTForms = { version = "^2.1", extras = ["email"] }
flask_restful = "^0.3"
flask-marshmallow = "^0.10"
marshmallow = "^3.0"
marshmallow-sqlalchemy = ">0.17,<0.26"
flask-uploads = "^0.2"
marshmallow-jsonapi = "^0.23.2"
outlier-utils = "^0.0.3"
webargs = "^5.5"                                   # do not upgrade, since it breaks parsing
querystring-parser = "^1.2"
scipy = "^1.5"
flatten_json = "^0.1"
flapison = "^0.30"
Flask-Migrate = "^2.5"
environs = "^9.2.0"
MarkupSafe = "<2.1.0"
scikit-learn = "^1.2.0"
marshmallow-jsonschema = "^0.13.0"
marshmallow-polyfield = "^5.11"
pytest = { version = "^7.2", optional = true }
WebTest = { version = "^2.0", optional = true }
factory-boy = { version = ">2.12,<4.0", optional = true }
livereload = { version = "^2.5", optional = true }
pre-commit = { version = "*", optional = true }
wheel = { version = "^0.30", optional = true }
psycopg2 = { version = "^2.6", optional = true }
gunicorn = { version = ">19.7,<21.0", optional = true }

[tool.poetry.extras]
dev = [
        "pytest",
        "WebTest",
        "factory-boy",
        "livereload",
        "pre-commit",
]
deploy = ["wheel"]
prod = ["psycopg2", "gunicorn"]

[tool.poetry.scripts]
megaqc = "megaqc.cli:main"

[build-system]
requires = ["poetry-core"]
build-backend = "poetry.core.masonry.api"