mirror of
https://github.com/galaxyproject/galaxy.git
synced 2026-09-24 16:30:27 +08:00
Update Python dependencies
by running `make update-dependencies`.
This commit is contained in:
galaxybot
@@ -4,7 +4,6 @@ aiohappyeyeballs==2.6.1
|
||||
aiohttp==3.13.3
|
||||
aiosignal==1.4.0
|
||||
alabaster==1.0.0
|
||||
anyio==4.12.1
|
||||
ase==3.27.0
|
||||
async-timeout==5.0.1 ; python_full_version < '3.11'
|
||||
attrs==25.4.0
|
||||
@@ -12,18 +11,18 @@ axe-selenium-python==2.1.6
|
||||
babel==2.18.0
|
||||
backports-asyncio-runner==1.2.0 ; python_full_version < '3.11'
|
||||
backports-tarfile==1.2.0 ; python_full_version < '3.12' and platform_machine != 'ppc64le' and platform_machine != 's390x'
|
||||
black==26.1.0
|
||||
boto3==1.42.55
|
||||
botocore==1.42.55
|
||||
black==26.3.0
|
||||
boto3==1.42.61
|
||||
botocore==1.42.61
|
||||
build==1.4.0
|
||||
cachecontrol==0.14.4
|
||||
cachetools==7.0.1
|
||||
cachetools==7.0.3
|
||||
cattrs==26.1.0
|
||||
certifi==2026.2.25
|
||||
cffi==2.0.0 ; (implementation_name != 'pypy' and os_name == 'nt') or platform_python_implementation != 'PyPy'
|
||||
charset-normalizer==3.4.4
|
||||
charset-normalizer==3.4.5
|
||||
click==8.3.1
|
||||
codespell==2.4.1
|
||||
codespell==2.4.2
|
||||
colorama==0.4.6 ; os_name == 'nt' or sys_platform == 'win32'
|
||||
colorlog==6.10.1
|
||||
contourpy==1.3.2 ; python_full_version < '3.11'
|
||||
@@ -41,7 +40,7 @@ docutils==0.22.4 ; python_full_version >= '3.11'
|
||||
dogpile-cache==1.5.0
|
||||
enum-tools==0.12.0
|
||||
exceptiongroup==1.3.1 ; python_full_version < '3.11'
|
||||
filelock==3.24.3
|
||||
filelock==3.25.0
|
||||
fluent-logger==0.11.1
|
||||
fonttools==4.61.1
|
||||
frozenlist==1.8.0
|
||||
@@ -49,30 +48,28 @@ fsspec==2026.2.0
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||||
galaxy-release-util==0.3.2
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gcsfs==2026.2.0
|
||||
google-api-core==2.30.0
|
||||
google-auth==2.48.0
|
||||
google-auth==2.49.0
|
||||
google-auth-oauthlib==1.3.0
|
||||
google-cloud-core==2.5.0
|
||||
google-cloud-storage==3.9.0
|
||||
google-cloud-storage-control==1.10.0
|
||||
google-crc32c==1.8.0
|
||||
google-resumable-media==2.8.0
|
||||
googleapis-common-protos==1.72.0
|
||||
googleapis-common-protos==1.73.0
|
||||
greenlet==3.3.2
|
||||
grpc-google-iam-v1==0.14.3
|
||||
grpcio==1.78.0
|
||||
grpcio-status==1.78.0
|
||||
h11==0.16.0
|
||||
html5rdf==1.2.1
|
||||
httpcore==1.0.9
|
||||
httpx==0.28.1
|
||||
id==1.6.1
|
||||
idna==3.11
|
||||
imagesize==1.4.1
|
||||
imagesize==2.0.0
|
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importlib-metadata==8.7.1 ; python_full_version < '3.12'
|
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iniconfig==2.3.0
|
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inquirerpy==0.3.4
|
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isodate==0.7.2 ; python_full_version < '3.11'
|
||||
isort==8.0.0
|
||||
isort==8.0.1
|
||||
jaraco-classes==3.4.0 ; platform_machine != 'ppc64le' and platform_machine != 's390x'
|
||||
jaraco-context==6.1.0 ; platform_machine != 'ppc64le' and platform_machine != 's390x'
|
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jaraco-functools==4.4.0 ; platform_machine != 'ppc64le' and platform_machine != 's390x'
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@@ -116,7 +113,7 @@ pathspec==1.0.4
|
||||
pfzy==0.3.4
|
||||
pillow==12.1.1
|
||||
pkce==1.0.3
|
||||
platformdirs==4.9.2
|
||||
platformdirs==4.9.4
|
||||
playwright==1.58.0
|
||||
pluggy==1.6.0
|
||||
port-for==1.0.0
|
||||
@@ -161,7 +158,7 @@ rdflib==7.5.0
|
||||
readme-renderer==44.0
|
||||
referencing==0.37.0
|
||||
requests==2.32.5
|
||||
requests-cache==1.3.0
|
||||
requests-cache==1.3.1
|
||||
requests-oauthlib==2.0.0
|
||||
requests-toolbelt==1.0.0
|
||||
responses==0.26.0
|
||||
@@ -174,7 +171,7 @@ rpds-py==0.30.0
|
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rsa==4.9.1
|
||||
ruamel-yaml==0.18.17
|
||||
ruamel-yaml-clib==0.2.15 ; python_full_version < '3.15' and platform_python_implementation == 'CPython'
|
||||
rucio-clients==39.3.1
|
||||
rucio-clients==39.4.0
|
||||
s3transfer==0.16.0
|
||||
schema-salad==8.9.20251102115403
|
||||
scipy==1.15.3 ; python_full_version < '3.11'
|
||||
@@ -199,7 +196,7 @@ sphinxcontrib-qthelp==2.0.0
|
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sphinxcontrib-serializinghtml==2.0.0
|
||||
statsd==4.0.1
|
||||
stevedore==5.7.0
|
||||
tabulate==0.9.0
|
||||
tabulate==0.10.0
|
||||
testfixtures==8.3.0 ; python_full_version < '3.11'
|
||||
testfixtures==10.0.0 ; python_full_version >= '3.11'
|
||||
text-unidecode==1.3
|
||||
@@ -223,5 +220,5 @@ wcwidth==0.6.0
|
||||
websocket-client==1.9.0
|
||||
werkzeug==3.1.6
|
||||
wsproto==1.3.2
|
||||
yarl==1.22.0
|
||||
yarl==1.23.0
|
||||
zipp==3.23.0 ; python_full_version < '3.12'
|
||||
|
||||
@@ -4,4 +4,4 @@ flake8-bugbear==25.11.29
|
||||
mccabe==0.7.0
|
||||
pycodestyle==2.14.0
|
||||
pyflakes==3.4.0
|
||||
ruff==0.15.4
|
||||
ruff==0.15.5
|
||||
|
||||
@@ -3,7 +3,7 @@
|
||||
a2wsgi==1.10.10
|
||||
adal==1.2.7
|
||||
ag-ui-protocol==0.1.13
|
||||
aiobotocore==3.2.0
|
||||
aiobotocore==3.2.1
|
||||
aiofile==3.9.0
|
||||
aiofiles==25.1.0
|
||||
aiohappyeyeballs==2.6.1
|
||||
@@ -16,14 +16,13 @@ annotated-doc==0.0.4
|
||||
annotated-types==0.7.0
|
||||
anthropic==0.84.0
|
||||
anyio==4.12.1
|
||||
apispec==6.9.0
|
||||
apispec==6.10.0
|
||||
appdirs==1.4.4
|
||||
arcp==0.2.1
|
||||
argcomplete==3.6.3
|
||||
async-timeout==5.0.1 ; python_full_version < '3.11'
|
||||
attmap==0.13.2
|
||||
attrs==25.4.0
|
||||
authlib==1.6.8
|
||||
authlib==1.6.9
|
||||
babel==2.18.0
|
||||
backports-tarfile==1.2.0 ; python_full_version < '3.12'
|
||||
bagit==1.9.0
|
||||
@@ -37,16 +36,16 @@ bioblend==1.8.0
|
||||
bleach==6.3.0
|
||||
boltons==25.0.0
|
||||
boto==2.49.0
|
||||
boto3==1.42.55
|
||||
botocore==1.42.55
|
||||
boto3==1.42.61
|
||||
botocore==1.42.61
|
||||
bx-python==0.14.0
|
||||
cachecontrol==0.14.4
|
||||
cachetools==7.0.1
|
||||
cachetools==7.0.3
|
||||
caio==0.9.25
|
||||
celery==5.6.2
|
||||
certifi==2026.2.25
|
||||
cffi==2.0.0 ; implementation_name == 'pypy' or platform_python_implementation != 'PyPy'
|
||||
charset-normalizer==3.4.4
|
||||
charset-normalizer==3.4.5
|
||||
circus==0.19.0
|
||||
click==8.3.1
|
||||
click-didyoumean==0.3.1
|
||||
@@ -63,7 +62,7 @@ ct3==3.4.0.post5
|
||||
cwl-upgrader==1.2.14
|
||||
cwl-utils==0.40
|
||||
cwltool==3.1.20260108082145
|
||||
cyclopts==4.6.0
|
||||
cyclopts==4.7.0
|
||||
defusedxml==0.7.1
|
||||
deprecated==1.3.1
|
||||
deprecation==2.1.0
|
||||
@@ -81,10 +80,10 @@ et-xmlfile==2.0.0
|
||||
eval-type-backport==0.3.1
|
||||
exceptiongroup==1.3.1
|
||||
executing==2.2.1
|
||||
fastapi==0.134.0
|
||||
fastapi==0.135.1
|
||||
fastavro==1.12.1 ; sys_platform != 'emscripten'
|
||||
fastmcp==3.0.2
|
||||
filelock==3.24.3
|
||||
fastmcp==3.1.0
|
||||
filelock==3.25.0
|
||||
fissix==24.4.24
|
||||
frozenlist==1.8.0
|
||||
fs==2.4.16
|
||||
@@ -92,10 +91,10 @@ fsspec==2026.2.0
|
||||
future==1.0.0
|
||||
genai-prices==0.0.55
|
||||
google-api-core==2.30.0
|
||||
google-auth==2.48.0
|
||||
google-auth==2.49.0
|
||||
google-cloud-batch==0.20.0
|
||||
google-genai==1.65.0
|
||||
googleapis-common-protos==1.72.0
|
||||
google-genai==1.66.0
|
||||
googleapis-common-protos==1.73.0
|
||||
gravity==1.2.0
|
||||
greenlet==3.3.2 ; platform_machine == 'AMD64' or platform_machine == 'WIN32' or platform_machine == 'aarch64' or platform_machine == 'amd64' or platform_machine == 'ppc64le' or platform_machine == 'win32' or platform_machine == 'x86_64'
|
||||
griffelib==2.0.0
|
||||
@@ -106,12 +105,12 @@ gunicorn==25.0.3
|
||||
gxformat2==0.22.0
|
||||
h11==0.16.0
|
||||
h5grove==3.0.0
|
||||
h5py==3.15.1
|
||||
h5py==3.16.0
|
||||
hf-xet==1.3.2 ; platform_machine == 'AMD64' or platform_machine == 'aarch64' or platform_machine == 'amd64' or platform_machine == 'arm64' or platform_machine == 'x86_64'
|
||||
httpcore==1.0.9
|
||||
httpx==0.28.1
|
||||
httpx-sse==0.4.3
|
||||
huggingface-hub==1.5.0
|
||||
huggingface-hub==1.6.0
|
||||
humanfriendly==10.0
|
||||
idna==3.11
|
||||
ijson==3.5.0
|
||||
@@ -130,15 +129,15 @@ jiter==0.13.0
|
||||
jmespath==1.1.0
|
||||
jsonref==1.1.0
|
||||
jsonschema==4.26.0
|
||||
jsonschema-path==0.4.3
|
||||
jsonschema-path==0.4.5
|
||||
jsonschema-specifications==2025.9.1
|
||||
keyring==25.7.0
|
||||
kombu==5.6.2
|
||||
lagom==2.7.7
|
||||
legacy-cgi==2.6.4 ; python_full_version >= '3.13'
|
||||
limits==5.8.0
|
||||
logfire==4.25.0
|
||||
logfire-api==4.25.0
|
||||
logfire==4.27.0
|
||||
logfire-api==4.27.0
|
||||
lxml==6.0.2
|
||||
mako==1.3.10
|
||||
markdown==3.10.2
|
||||
@@ -152,7 +151,7 @@ mistralai==1.12.4
|
||||
mistune==3.1.4
|
||||
more-itertools==10.8.0
|
||||
mrcfile==1.5.4
|
||||
msal==1.35.0
|
||||
msal==1.35.1
|
||||
msgpack==1.1.2
|
||||
multidict==6.7.1
|
||||
mypy-extensions==1.1.0
|
||||
@@ -164,7 +163,7 @@ nodejs-wheel-binaries==22.20.0
|
||||
numpy==2.2.6 ; python_full_version < '3.11'
|
||||
numpy==2.4.2 ; python_full_version >= '3.11'
|
||||
oauthlib==3.3.1
|
||||
openai==2.24.0
|
||||
openai==2.26.0
|
||||
openapi-pydantic==0.5.1
|
||||
openpyxl==3.1.5
|
||||
opentelemetry-api==1.39.1
|
||||
@@ -177,7 +176,6 @@ opentelemetry-sdk==1.39.1
|
||||
opentelemetry-semantic-conventions==0.60b1
|
||||
opentelemetry-util-http==0.60b1
|
||||
orjson==3.11.7
|
||||
oyaml==1.0
|
||||
packaging==25.0
|
||||
paramiko==4.0.0
|
||||
parsley==1.3
|
||||
@@ -186,7 +184,7 @@ pastedeploy==3.1.0
|
||||
pathable==0.5.0
|
||||
pebble==5.2.0
|
||||
pillow==12.1.1
|
||||
platformdirs==4.9.2
|
||||
platformdirs==4.9.4
|
||||
prompt-toolkit==3.0.52
|
||||
propcache==0.4.1
|
||||
proto-plus==1.27.1
|
||||
@@ -200,11 +198,11 @@ pyasn1-modules==0.4.2
|
||||
pycparser==3.0 ; (implementation_name != 'PyPy' and platform_python_implementation != 'PyPy') or (implementation_name == 'pypy' and platform_python_implementation == 'PyPy')
|
||||
pycryptodome==3.23.0
|
||||
pydantic==2.12.5
|
||||
pydantic-ai==1.63.0
|
||||
pydantic-ai-slim==1.63.0
|
||||
pydantic-ai==1.67.0
|
||||
pydantic-ai-slim==1.67.0
|
||||
pydantic-core==2.41.5
|
||||
pydantic-evals==1.63.0
|
||||
pydantic-graph==1.63.0
|
||||
pydantic-evals==1.67.0
|
||||
pydantic-graph==1.67.0
|
||||
pydantic-settings==2.13.1
|
||||
pydantic-tes==0.3.0
|
||||
pydicom==3.0.1
|
||||
@@ -222,12 +220,12 @@ pypng==0.20220715.0
|
||||
pyreadline3==3.5.4 ; sys_platform == 'win32'
|
||||
pysam==0.23.3
|
||||
python-dateutil==2.9.0.post0
|
||||
python-dotenv==1.2.1
|
||||
python-dotenv==1.2.2
|
||||
python-magic==0.4.27
|
||||
python-multipart==0.0.22
|
||||
python-slugify==8.0.4
|
||||
python3-openid==3.2.0
|
||||
pytz==2025.2
|
||||
pytz==2026.1.post1
|
||||
pywin32==311 ; sys_platform == 'win32'
|
||||
pywin32-ctypes==0.2.3 ; sys_platform == 'win32'
|
||||
pyyaml==6.0.3
|
||||
@@ -262,18 +260,18 @@ sniffio==1.3.1
|
||||
social-auth-core==4.8.5
|
||||
sortedcontainers==2.4.0
|
||||
spython==0.3.14
|
||||
sqlalchemy==2.0.47
|
||||
sqlalchemy==2.0.48
|
||||
sqlparse==0.5.5
|
||||
sse-starlette==3.2.0
|
||||
sse-starlette==3.3.2
|
||||
starlette==0.52.1
|
||||
starlette-context==0.4.0
|
||||
starlette-context==0.5.1
|
||||
supervisor==4.3.0
|
||||
svgwrite==1.4.3
|
||||
temporalio==1.20.0
|
||||
tenacity==9.1.4
|
||||
text-unidecode==1.3
|
||||
tifffile==2025.5.10 ; python_full_version < '3.11'
|
||||
tifffile==2026.2.24 ; python_full_version >= '3.11'
|
||||
tifffile==2026.3.3 ; python_full_version >= '3.11'
|
||||
tiktoken==0.12.0
|
||||
tinydb==4.8.2
|
||||
tokenizers==0.22.2 ; sys_platform != 'emscripten'
|
||||
@@ -290,6 +288,7 @@ typing-inspection==0.4.2
|
||||
tzdata==2025.3
|
||||
tzlocal==5.3.1
|
||||
ubiquerg==0.9.1
|
||||
uncalled-for==0.2.0
|
||||
urllib3==2.6.3
|
||||
uvicorn==0.41.0
|
||||
uvloop==0.22.1
|
||||
@@ -301,9 +300,9 @@ webob==1.8.9
|
||||
websockets==16.0
|
||||
whoosh==2.7.4
|
||||
wrapt==1.17.3
|
||||
xai-sdk==1.7.0
|
||||
yacman==0.9.5
|
||||
yarl==1.22.0
|
||||
xai-sdk==1.8.0
|
||||
yacman==1.0.0
|
||||
yarl==1.23.0
|
||||
zipp==3.23.0
|
||||
zipstream-new==1.1.8
|
||||
zstandard==0.25.0
|
||||
|
||||
@@ -3,20 +3,19 @@
|
||||
aiohappyeyeballs==2.6.1
|
||||
aiohttp==3.13.3
|
||||
aiosignal==1.4.0
|
||||
anyio==4.12.1
|
||||
ase==3.27.0
|
||||
async-timeout==5.0.1 ; python_full_version < '3.11'
|
||||
attrs==25.4.0
|
||||
axe-selenium-python==2.1.6
|
||||
backports-asyncio-runner==1.2.0 ; python_full_version < '3.11'
|
||||
boto3==1.42.55
|
||||
botocore==1.42.55
|
||||
boto3==1.42.61
|
||||
botocore==1.42.61
|
||||
cachecontrol==0.14.4
|
||||
cachetools==7.0.1
|
||||
cachetools==7.0.3
|
||||
cattrs==26.1.0
|
||||
certifi==2026.2.25
|
||||
cffi==2.0.0 ; (implementation_name != 'pypy' and os_name == 'nt') or platform_python_implementation != 'PyPy'
|
||||
charset-normalizer==3.4.4
|
||||
charset-normalizer==3.4.5
|
||||
click==8.3.1
|
||||
colorama==0.4.6 ; sys_platform == 'win32'
|
||||
colorlog==6.10.1
|
||||
@@ -31,29 +30,27 @@ defusedxml==0.7.1
|
||||
dogpile-cache==1.5.0
|
||||
enum-tools==0.12.0
|
||||
exceptiongroup==1.3.1 ; python_full_version < '3.11'
|
||||
filelock==3.24.3
|
||||
filelock==3.25.0
|
||||
fluent-logger==0.11.1
|
||||
fonttools==4.61.1
|
||||
frozenlist==1.8.0
|
||||
fsspec==2026.2.0
|
||||
gcsfs==2026.2.0
|
||||
google-api-core==2.30.0
|
||||
google-auth==2.48.0
|
||||
google-auth==2.49.0
|
||||
google-auth-oauthlib==1.3.0
|
||||
google-cloud-core==2.5.0
|
||||
google-cloud-storage==3.9.0
|
||||
google-cloud-storage-control==1.10.0
|
||||
google-crc32c==1.8.0
|
||||
google-resumable-media==2.8.0
|
||||
googleapis-common-protos==1.72.0
|
||||
googleapis-common-protos==1.73.0
|
||||
greenlet==3.3.2
|
||||
grpc-google-iam-v1==0.14.3
|
||||
grpcio==1.78.0
|
||||
grpcio-status==1.78.0
|
||||
h11==0.16.0
|
||||
html5rdf==1.2.1
|
||||
httpcore==1.0.9
|
||||
httpx==0.28.1
|
||||
idna==3.11
|
||||
importlib-metadata==8.7.1 ; python_full_version < '3.12'
|
||||
iniconfig==2.3.0
|
||||
@@ -91,7 +88,7 @@ pathspec==1.0.4
|
||||
pfzy==0.3.4
|
||||
pillow==12.1.1
|
||||
pkce==1.0.3
|
||||
platformdirs==4.9.2
|
||||
platformdirs==4.9.4
|
||||
playwright==1.58.0
|
||||
pluggy==1.6.0
|
||||
port-for==1.0.0
|
||||
@@ -129,7 +126,7 @@ pyyaml==6.0.3
|
||||
rdflib==7.5.0
|
||||
referencing==0.37.0
|
||||
requests==2.32.5
|
||||
requests-cache==1.3.0
|
||||
requests-cache==1.3.1
|
||||
requests-oauthlib==2.0.0
|
||||
responses==0.26.0
|
||||
rich==13.9.4
|
||||
@@ -139,7 +136,7 @@ rpds-py==0.30.0
|
||||
rsa==4.9.1
|
||||
ruamel-yaml==0.18.17
|
||||
ruamel-yaml-clib==0.2.15 ; python_full_version < '3.15' and platform_python_implementation == 'CPython'
|
||||
rucio-clients==39.3.1
|
||||
rucio-clients==39.4.0
|
||||
s3transfer==0.16.0
|
||||
schema-salad==8.9.20251102115403
|
||||
scipy==1.15.3 ; python_full_version < '3.11'
|
||||
@@ -151,7 +148,7 @@ sniffio==1.3.1
|
||||
sortedcontainers==2.4.0
|
||||
statsd==4.0.1
|
||||
stevedore==5.7.0
|
||||
tabulate==0.9.0
|
||||
tabulate==0.10.0
|
||||
testfixtures==8.3.0 ; python_full_version < '3.11'
|
||||
testfixtures==10.0.0 ; python_full_version >= '3.11'
|
||||
text-unidecode==1.3
|
||||
@@ -174,5 +171,5 @@ wcwidth==0.6.0
|
||||
websocket-client==1.9.0
|
||||
werkzeug==3.1.6
|
||||
wsproto==1.3.2
|
||||
yarl==1.22.0
|
||||
yarl==1.23.0
|
||||
zipp==3.23.0 ; python_full_version < '3.12'
|
||||
|
||||
@@ -1,7 +1,7 @@
|
||||
# This file was autogenerated by uv via the following command:
|
||||
# uv export --frozen --no-annotate --no-hashes --only-group=typecheck
|
||||
annotated-types==0.7.0
|
||||
boto3-stubs==1.42.59
|
||||
boto3-stubs==1.42.63
|
||||
botocore-stubs==1.42.41
|
||||
cffi==2.0.0 ; platform_python_implementation != 'PyPy'
|
||||
cryptography==46.0.5
|
||||
@@ -24,7 +24,7 @@ types-docutils==0.22.3.20260223
|
||||
types-html5lib==1.1.11.20251117
|
||||
types-markdown==3.10.2.20260211
|
||||
types-paramiko==4.0.0.20250822
|
||||
types-python-dateutil==2.9.0.20260124
|
||||
types-python-dateutil==2.9.0.20260305
|
||||
types-python-slugify==8.0.2.20240310
|
||||
types-pyyaml==6.0.12.20250915
|
||||
types-requests==2.32.4.20260107
|
||||
|
||||
Reference in New Issue
Block a user