-
Notifications
You must be signed in to change notification settings - Fork 26
/
pyproject.toml
133 lines (117 loc) · 3.46 KB
/
pyproject.toml
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
[tool.poetry]
name = "schematicpy"
version = "24.11.2"
description = "Package for biomedical data model and metadata ingress management"
authors = [
"Milen Nikolov <milen.nikolov@sagebase.org>",
"Lingling Peng <lingling.peng@sagebase.org>",
"Mialy Defelice <mialy.defelice@sagebase.org>",
"Gianna Jordan <gianna.jordan@sagebase.org>",
"Bruno Grande <bruno.grande@sagebase.org>",
"Robert Allaway <robert.allaway@sagebionetworks.org>",
]
readme = "README.md"
homepage = "https://github.com/Sage-Bionetworks/schematic"
repository = "https://github.com/Sage-Bionetworks/schematic"
documentation = "https://github.com/Sage-Bionetworks/schematic"
# Additional keywords: annotation, knowledge graph, ontology, data ingress
keywords = ["schema", "metadata", "validation", "data model", "linked data"]
classifiers = [
"Development Status :: 4 - Beta",
"Environment :: Console",
"Intended Audience :: Science/Research",
"Topic :: Software Development :: Libraries :: Python Modules"
]
packages = [
{ include = "schematic" },
{ include = "schematic_api" }
]
[tool.poetry.scripts]
schematic = "schematic.__main__:main"
[tool.poetry.dependencies]
python = ">=3.9.0,<3.11"
click = "^8.0.0"
click-log = "^0.4.0"
google-api-python-client = "^2.0.0"
google-auth-httplib2 = "^0.1.0"
google-auth-oauthlib = "^0.8.0"
graphviz = "^0.20.0"
inflection = "^0.5.1"
jsonschema = "^4.0.0"
networkx = ">=2.2.8"
numpy = "^1.26.4"
oauth2client = "^4.1.0" # Specified because of bug in version ^4.0.0
pandas = "^2.2.2"
pygsheets = "^2.0.4"
PyYAML = "^6.0.0"
rdflib = "^6.0.0"
setuptools = "^66.0.0"
synapseclient = "4.6.0"
tenacity = "^8.0.1"
toml = "^0.10.2"
great-expectations = "^0.15.0"
itsdangerous = "^2.0.0"
openpyxl = "^3.0.9"
"backports.zoneinfo" = {markers = "python_version < \"3.9\"", version = "^0.2.1"}
dateparser = "^1.1.4"
pandarallel = "^1.6.4"
pyopenssl = {version = "^23.0.0", optional = true}
dataclasses-json = "^0.6.1"
pydantic = "^1.10.4"
connexion = {extras = ["swagger-ui"], version = "^2.8.0"}
Flask = "2.1.3"
Flask-Cors = "^3.0.10"
uWSGI = {version = "^2.0.21", optional = true}
Jinja2 = {version = ">2.11.3", optional = true}
asyncio = "^3.4.3"
PyJWT = "^2.9.0"
opentelemetry-api = {version = ">=1.21.0", optional = true}
opentelemetry-sdk = {version = ">=1.21.0", optional = true}
opentelemetry-exporter-otlp-proto-http = {version="^1.0.0", optional = true}
opentelemetry-instrumentation-flask = ">=0.48b0"
requests-oauth2client = ">=1.6.0"
[tool.poetry.extras]
api = ["Jinja2", "pyopenssl", "opentelemetry-api", "opentelemetry-sdk", "opentelemetry-exporter-otlp-proto-http"]
aws = ["uWSGI"]
[tool.poetry.group.dev.dependencies]
pytest = "^8.0.0"
pytest-cov = "^4.0.0"
pytest-mock = "^3.5.1"
pytest-rerunfailures = "^12.0"
pytest-asyncio = "^0.24.0"
flake8 = "^6.0.0"
python-dotenv = "^0.21.0"
black = "^23.7.0" #If the version spec of black is changed here, the version specified in .pre-commit-config.yaml should be updated to match
mypy = "^1.4.1"
pylint = "^2.16.1"
pytest-xdist = "^3.5.0"
pre-commit = "^3.6.2"
[tool.poetry.group.doc.dependencies]
pdoc = "^14.0.0"
sphinx = "7.3.7"
sphinx-click = "4.4.0"
[tool.black]
line-length = 88
include = '\.pyi?$'
exclude = '''
(
/(
\.eggs
| \.git
| \.venv
| dist
)/
)
'''
[build-system]
requires = ["poetry-core>=1.0.0"]
build-backend = "poetry.core.masonry.api"
[tool.pytest.ini_options]
minversion = "6.0"
addopts = "--verbose"
testpaths = [
"tests"
]
filterwarnings = [
"ignore::DeprecationWarning"
]