forked from galaxyproject/galaxy
-
Notifications
You must be signed in to change notification settings - Fork 0
/
pyproject.toml
144 lines (139 loc) · 3.2 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
134
135
136
137
138
139
140
141
142
143
144
[tool.black]
line-length = 120
target-version = ['py37']
include = '\.pyi?$'
extend-exclude = '''
^/(
| packages
)/
'''
force-exclude = 'lib/galaxy/util/jstree.py'
[tool.darker]
isort = true
[tool.poetry]
name = "galaxy"
version = "22.01.dev0"
description = "Galaxy is an open, web-based platform for accessible, reproducible, and transparent computational research."
authors = ["Galaxy Contributors"]
license = "AFL-3.0"
readme = "README.rst"
homepage = "https://galaxyproject.org/"
repository = "https://github.com/galaxyproject/galaxy/"
documentation = "https://docs.galaxyproject.org/"
[[tool.poetry.source]]
name = "galaxyproject"
url = "https://wheels.galaxyproject.org/simple"
[tool.poetry.dependencies]
a2wsgi = "*"
aiofiles = "*"
alembic = "*"
apispec = "*"
Babel = "*"
bdbag = ">=1.6.3"
Beaker = "1.11.0"
bioblend = "*"
bleach = "*"
boltons = "*"
boto = "*"
bx-python = "*"
celery = "*"
Cheetah3 = "!=3.2.6.post2" # yanked release, https://github.com/python-poetry/poetry/issues/2453
cloudauthz = "==0.6.0"
cloudbridge = "*"
circus = "*"
cwltool = "==3.1.20211107152837"
dictobj = "*"
docutils = "!=0.17, !=0.17.1"
edam-ontology = "*"
fastapi = ">=0.68.2, !=0.69.0, !=0.70.0, !=0.70.1" # https://github.com/tiangolo/fastapi/issues/4041
fastapi-utils = "*"
fs = "*"
future = "*"
galaxy_sequence_utils = "*"
gravity = ">=0.10.0"
gunicorn = "*"
gxformat2 = "*"
h5py = "*"
importlib_resources = "*"
isa-rwval = "*"
kombu = "*"
lagom = "*"
Mako = "*"
Markdown = "*"
MarkupSafe = "*"
Mercurial = "*"
mrcfile = "*"
nodeenv = "*"
nose = "*"
numpy = "*"
paramiko = "!=2.9.0, !=2.9.1" # https://github.com/paramiko/paramiko/issues/1961
Parsley = "*"
Paste = "*"
pebble = "*"
psutil = "*"
pulsar-galaxy-lib = ">=0.14.13"
pycryptodome = "*"
pydantic = "*"
PyJWT = "*"
pykwalify = "*"
pylibmagic = "*"
pyparsing = "*"
pysam = "*"
python = ">=3.7,<3.11" # Keep maximum version strict to appease numpy and scipy
python-dateutil = "*"
python-magic = "*"
python-multipart = "*" # required to support form parsing in FastAPI/Starlette
PyYAML = "*"
refgenconf = ">=0.12.0"
requests = "*"
Routes = "*"
social-auth-core = {version = "==4.0.3", extras = ["openidconnect"]}
sortedcontainers = "*"
SQLAlchemy = ">=1.4.25,<2"
sqlalchemy-migrate = "*" # required to support tool shed
sqlitedict = "*"
sqlparse = "*"
starlette = "*"
starlette-context = "*"
svgwrite = "*"
tifffile = "*"
tuswsgi = "*"
typing-extensions = "*"
uvicorn = "*"
uvloop = "*"
WebOb = "*"
Whoosh = "*"
zipstream-new = "*"
[tool.poetry.dev-dependencies]
ase = ">=3.18.1"
black = "^22.1.0"
cwltest = "2.2.20210901154959"
darker = "*"
fluent-logger = "*"
httpx = "*"
isort = "^5.10.1"
lxml = "!=4.2.2"
markdown-it-reporter = "*"
NoseHTML = "*"
PyGithub = "*"
pytest = "*"
pytest-asyncio = "*"
pytest-celery = "*"
pytest-cov = "*"
pytest-html = "*"
python-irodsclient = "!=1.1.2" # https://github.com/irods/python-irodsclient/issues/356
pytest-json-report = "*"
pytest-mock = "*"
pytest-postgresql = "!=3.0.0" # https://github.com/ClearcodeHQ/pytest-postgresql/issues/426
pytest-shard = "*"
recommonmark = "*"
responses = "*"
selenium = "*"
Sphinx = ">=4.0" # support docutils 0.17
sphinx_markdown_tables = "*"
sphinx_rtd_theme = ">=1.0.0"
statsd = "*"
testfixtures = "*"
tuspy = "*"
twill = "*"
watchdog = "*"