opensource/galaxy
3
0
Fork 0
mirror of https://github.com/galaxyproject/galaxy.git synced 2026-09-24 16:30:27 +08:00
Code Issues Packages Projects Releases Wiki Activity

Merge pull request #13086 from galaxybot/dev_auto_update_dependencies

Browse Source 
Update Python dependencies
This commit is contained in:
Marius van den Beek
2022-01-07 10:06:45 +01:00
committed by GitHub
parent e714872a5b b9efe433e6
commit 61b88db7ab
8 changed files with 64 additions and 59 deletions
Download Patch File Download Diff File Expand all files Collapse all files
.github/workflows/dependencies.yaml
+1
View File
@@ -27,6 +27,7 @@ jobs:
- name: Create pull request
uses: peter-evans/create-pull-request@v3
with:
author: galaxybot <galaxybot@users.noreply.github.com>
token: ${{ secrets.GALAXYBOT_PAT }}
commit-message: Update Python dependencies
branch: dev_auto_update_dependencies
lib/galaxy/dependencies/dev-requirements.txt
+25 -25
View File
@@ -3,15 +3,15 @@
adal==1.2.7
aiofiles==0.8.0; python_version >= "3.6" and python_version < "4.0"
alabaster==0.7.12; python_version >= "3.6" and python_full_version < "3.0.0" or python_full_version >= "3.4.0" and python_version >= "3.6"
amqp==5.0.6; python_version >= "3.7"
anyio==3.4.0; python_full_version >= "3.6.2" and python_version >= "3.6"
amqp==5.0.9; python_version >= "3.7"
anyio==3.4.0; python_version >= "3.7" and python_full_version >= "3.6.2"
appdirs==1.4.4
argcomplete==1.12.3; python_version >= "3.6" and python_version < "4"
asgiref==3.4.1; python_version >= "3.6"
async-generator==1.10; python_version >= "3.7" and python_version < "4.0"
atomicwrites==1.4.0; python_version >= "3.7" and python_full_version < "3.0.0" and sys_platform == "win32" or sys_platform == "win32" and python_version >= "3.7" and python_full_version >= "3.4.0"
attmap==0.13.2
attrs==21.2.0; python_version >= "3.7" and python_full_version < "3.0.0" and python_version < "4.0" or python_full_version >= "3.5.0" and python_version >= "3.7" and python_version < "4.0"
attrs==21.4.0; python_version >= "3.7" and python_full_version < "3.0.0" and python_version < "4.0" or python_full_version >= "3.5.0" and python_version >= "3.7" and python_version < "4.0"
babel==2.9.1; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.4.0")
bagit-profile==1.3.1; python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4"
bagit==1.8.1; python_version >= "3.6" and python_full_version < "3.0.0" and python_version < "4" or python_full_version >= "3.5.0" and python_version < "4" and python_version >= "3.6"
@@ -24,10 +24,10 @@ black==21.12b0; python_full_version >= "3.6.2" and python_version >= "3.6"
bleach==4.1.0; python_version >= "3.6"
boltons==21.0.0
boto==2.49.0
bx-python==0.8.12; python_version >= "3.6"
bx-python==0.8.13; python_version >= "3.7"
cachecontrol==0.12.10; python_version >= "3.6" and python_version < "4"
cached-property==1.5.2; python_version < "3.8" and python_version >= "3.7"
celery==5.2.1; python_version >= "3.7"
celery==5.2.3; python_version >= "3.7"
certifi==2021.10.8; python_version >= "3.7" and python_full_version < "3.0.0" and python_version < "4" or python_full_version >= "3.6.0" and python_version < "4" and python_version >= "3.7"
cffi==1.15.0
charset-normalizer==2.0.9; python_full_version >= "3.6.0" and python_version >= "3.6" and python_version < "4"
@@ -43,7 +43,7 @@ colorama==0.4.4; sys_platform == "win32" and python_version >= "3.7" and python_
coloredlogs==15.0.1; python_version >= "3.6" and python_full_version < "3.0.0" and python_version < "4" or python_version >= "3.6" and python_version < "4" and python_full_version >= "3.5.0"
commonmark==0.9.1; python_full_version >= "3.6.2" and python_full_version < "4.0.0"
coverage==6.2; python_version >= "3.6"
cryptography==36.0.0; python_version >= "3.7" and python_full_version < "3.0.0" and python_version < "4" or python_full_version >= "3.6.0" and python_version < "4" and python_version >= "3.7"
cryptography==36.0.1; python_version >= "3.7" and python_full_version < "3.0.0" and python_version < "4" or python_full_version >= "3.6.0" and python_version < "4" and python_version >= "3.7"
cwltest==2.2.20210901154959; python_version >= "3.6" and python_version < "4"
cwltool==3.1.20211107152837; python_version >= "3.6" and python_version < "4"
darker==1.3.2; python_version >= "3.6"
@@ -72,20 +72,20 @@ h5py==3.6.0; python_version >= "3.7"
httpcore==0.14.3; python_version >= "3.6"
httpx==0.21.1; python_version >= "3.6"
humanfriendly==10.0; python_version >= "3.6" and python_full_version < "3.0.0" and python_version < "4" or python_version >= "3.6" and python_version < "4" and python_full_version >= "3.5.0"
idna==3.3; python_version >= "3.7" and python_version < "4.0" and python_full_version >= "3.6.2"
idna==3.3
imagesize==1.3.0; python_version >= "3.6" and python_full_version < "3.0.0" or python_full_version >= "3.4.0" and python_version >= "3.6"
importlib-metadata==4.8.2; python_version == "3.7" and (python_version >= "3.6" and python_full_version < "3.0.0" and python_version < "3.8" or python_full_version >= "3.6.0" and python_version < "3.8" and python_version >= "3.6")
importlib-metadata==4.10.0; python_version == "3.7" and (python_version >= "3.7" and python_full_version < "3.0.0" and python_version < "3.8" or python_full_version >= "3.6.0" and python_version < "3.8" and python_version >= "3.7")
importlib-resources==5.4.0; python_version < "3.9" and python_version >= "3.7"
iniconfig==1.1.1; python_version >= "3.7"
isa-rwval==0.10.10
isodate==0.6.0; python_version >= "3.7" and python_version < "4"
isodate==0.6.1; python_version >= "3.7" and python_version < "4"
jinja2==3.0.3; python_version >= "3.6" and python_full_version < "3.0.0" or python_full_version >= "3.4.0" and python_version >= "3.6"
jsonschema==4.2.1; python_version >= "3.7"
jsonschema==4.3.2; python_version >= "3.7"
junit-xml==1.9; python_version >= "3.6" and python_version < "4"
kombu==5.2.2; python_version >= "3.7"
kombu==5.2.3; python_version >= "3.7"
lagom==1.7.0; python_version >= "3.6" and python_version < "4.0"
lockfile==0.12.2; python_version >= "3.6" and python_version < "4"
lxml==4.6.4; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.5.0")
lxml==4.7.1; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.5.0")
mako==1.1.6; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.4.0")
markdown-it-reporter==0.0.2
markdown==3.3.6; python_version >= "3.6"
@@ -111,24 +111,24 @@ paste==3.5.0
pastedeploy==2.1.1
pathspec==0.9.0; python_full_version >= "3.6.2" and python_version >= "3.6"
pbr==5.8.0; python_version >= "2.6"
platformdirs==2.4.0; python_full_version >= "3.6.2" and python_version >= "3.6"
platformdirs==2.4.1; python_full_version >= "3.6.2" and python_version >= "3.7"
pluggy==1.0.0; python_version >= "3.7"
port-for==0.6.1; python_version >= "3.7"
prettytable==2.4.0; python_version >= "3.6"
prettytable==2.5.0; python_version >= "3.6"
prompt-toolkit==3.0.24; python_full_version >= "3.6.2" and python_version >= "3.7"
prov==1.5.1; python_version >= "3.6" and python_version < "4"
psutil==5.8.0; (python_version >= "2.6" and python_full_version < "3.0.0") or (python_full_version >= "3.4.0")
psutil==5.9.0; (python_version >= "2.6" and python_full_version < "3.0.0") or (python_full_version >= "3.4.0")
pulsar-galaxy-lib==0.14.13
py==1.11.0; python_version >= "3.7" and python_full_version < "3.0.0" and implementation_name == "pypy" or python_full_version >= "3.5.0" and python_version >= "3.7" and implementation_name == "pypy"
pyasn1==0.4.8; python_version >= "3.6" and python_version < "4"
pycparser==2.21
pycryptodome==3.12.0; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.5.0")
pydantic==1.8.2; python_version >= "3.6" and python_version < "4.0" and python_full_version >= "3.6.1"
pydantic==1.9.0; python_version >= "3.6" and python_version < "4.0" and python_full_version >= "3.6.1"
pydot==1.4.2; python_version >= "3.6" and python_full_version < "3.0.0" and python_version < "4" or python_version >= "3.6" and python_version < "4" and python_full_version >= "3.4.0"
pyeventsystem==0.1.0
pyfaidx==0.6.3.1
pygithub==1.55; python_version >= "3.6"
pygments==2.10.0; python_full_version >= "3.6.2" and python_full_version < "4.0.0" and python_version >= "3.6" and (python_version >= "3.6" and python_full_version < "3.0.0" or python_full_version >= "3.4.0" and python_version >= "3.6")
pygments==2.11.1; python_full_version >= "3.6.2" and python_full_version < "4.0.0" and python_version >= "3.6" and (python_version >= "3.6" and python_full_version < "3.0.0" or python_full_version >= "3.4.0" and python_version >= "3.6")
pyjwt==2.3.0; python_version >= "3.6"
pykwalify==1.8.0
pynacl==1.4.0; python_version >= "3.6" and python_full_version < "3.0.0" or python_full_version >= "3.4.0" and python_version >= "3.6"
@@ -145,7 +145,7 @@ pytest-html==3.1.1; python_version >= "3.6"
pytest-json-report==1.4.1
pytest-metadata==1.11.0; python_version >= "3.6" and python_full_version < "3.0.0" or python_full_version >= "3.6.0" and python_version >= "3.6"
pytest-mock==3.6.1; python_version >= "3.6"
pytest-postgresql==4.0.0; python_version >= "3.7"
pytest-postgresql==4.1.0; python_version >= "3.7"
pytest-pythonpath==0.7.3
pytest-shard==0.1.2; python_version >= "3.6"
pytest==6.2.5; python_version >= "3.6"
@@ -167,23 +167,23 @@ requests-toolbelt==0.9.1; python_version >= "3.6"
requests==2.26.0; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.6.0")
responses==0.16.0; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.5.0")
rfc3986==1.5.0; python_version >= "3.6"
rich==10.15.2; python_full_version >= "3.6.2" and python_full_version < "4.0.0"
rich==10.16.1; python_full_version >= "3.6.2" and python_full_version < "4.0.0"
routes==2.5.1
rsa==4.8; python_version >= "3.6" and python_version < "4"
ruamel.yaml.clib==0.2.6; platform_python_implementation == "CPython" and python_version < "3.10" and python_version >= "3.6"
ruamel.yaml==0.17.17; python_version >= "3.6" and python_version < "4"
schema-salad==8.2.20211116214159; python_version >= "3.6" and python_version < "4"
schema-salad==8.2.20211222191353; python_version >= "3.6" and python_version < "4"
selenium==4.1.0; python_version >= "3.7" and python_version < "4.0"
setuptools-scm==5.0.2; python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4"
shellescape==3.8.1; python_version >= "3.6" and python_version < "4"
six==1.16.0; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.3.0")
sniffio==1.2.0; python_version >= "3.7" and python_version < "4.0" and python_full_version >= "3.6.2"
sniffio==1.2.0; python_version >= "3.7" and python_full_version >= "3.6.2" and python_version < "4.0"
snowballstemmer==2.2.0; python_version >= "3.6" and python_full_version < "3.0.0" or python_full_version >= "3.4.0" and python_version >= "3.6"
social-auth-core==4.0.3
sortedcontainers==2.4.0
sphinx-markdown-tables==0.0.15
sphinx-rtd-theme==1.0.0; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.4.0")
sphinx==4.3.1; python_version >= "3.6"
sphinx==4.3.2; python_version >= "3.6"
sphinxcontrib-applehelp==1.0.2; python_version >= "3.6" and python_full_version < "3.0.0" or python_full_version >= "3.4.0" and python_version >= "3.6"
sphinxcontrib-devhelp==1.0.2; python_version >= "3.6" and python_full_version < "3.0.0" or python_full_version >= "3.4.0" and python_version >= "3.6"
sphinxcontrib-htmlhelp==2.0.0; python_version >= "3.6" and python_full_version < "3.0.0" or python_full_version >= "3.4.0" and python_version >= "3.6"
@@ -191,7 +191,7 @@ sphinxcontrib-jsmath==1.0.1; python_version >= "3.6" and python_full_version < "
sphinxcontrib-qthelp==1.0.3; python_version >= "3.6" and python_full_version < "3.0.0" or python_full_version >= "3.4.0" and python_version >= "3.6"
sphinxcontrib-serializinghtml==1.1.5; python_version >= "3.6" and python_full_version < "3.0.0" or python_full_version >= "3.4.0" and python_version >= "3.6"
sqlalchemy-migrate==0.13.0
sqlalchemy==1.4.28; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.6.0")
sqlalchemy==1.4.29; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.6.0")
sqlitedict==1.7.0
sqlparse==0.4.2; python_version >= "3.5"
starlette-context==0.3.3; python_version >= "3.7"
@@ -204,7 +204,7 @@ testfixtures==6.18.3
tifffile==2021.11.2; python_version >= "3.7"
tinydb==4.5.0; python_version >= "3.5" and python_version < "4.0"
toml==0.10.2; python_version >= "3.7" and python_full_version < "3.0.0" or python_full_version >= "3.3.0" and python_version >= "3.7"
tomli==1.2.2; python_full_version >= "3.6.2" and python_version >= "3.6"
tomli==1.2.3; python_full_version >= "3.6.2" and python_version >= "3.6"
tornado==6.1; python_version >= "3.5"
tqdm==4.62.3; python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.4.0"
trio-websocket==0.9.2; python_version >= "3.7" and python_version < "4.0"
@@ -228,5 +228,5 @@ wrapt==1.13.3; python_version >= "3.6" and python_full_version < "3.0.0" or pyth
wsproto==1.0.0; python_version >= "3.7" and python_version < "4.0" and python_full_version >= "3.6.1"
xmlrunner==1.7.7
yacman==0.8.4
zipp==3.6.0; python_version == "3.7" and (python_version >= "3.6" and python_full_version < "3.0.0" and python_version < "3.8" or python_full_version >= "3.6.0" and python_version < "3.8" and python_version >= "3.6")
zipp==3.7.0; python_version == "3.7" and (python_version >= "3.7" and python_full_version < "3.0.0" and python_version < "3.8" or python_full_version >= "3.6.0" and python_version < "3.8" and python_version >= "3.7")
zipstream-new==1.1.8
lib/galaxy/dependencies/pinned-lint-requirements.txt
+12 -12
View File
@@ -1,4 +1,4 @@
attrs==21.2.0
attrs==21.4.0
flake8==4.0.1
flake8-bugbear==21.11.29
flake8-import-order==0.18.1
@@ -10,20 +10,20 @@ pycodestyle==2.8.0
pyflakes==2.4.0
toml==0.10.2
typed-ast==1.4.3
types-bleach==4.1.1
types-boto==2.49.2
types-bleach==4.1.2
types-boto==2.49.3
types-contextvars==2.4.0
types-cryptography==3.3.9
types-dataclasses==0.6.1
types-docutils==0.17.1
types-cryptography==3.3.10
types-dataclasses==0.6.2
types-docutils==0.17.2
types-enum34==1.1.1
types-ipaddress==1.0.1
types-Markdown==3.3.9
types-paramiko==2.8.4
types-Markdown==3.3.10
types-paramiko==2.8.6
types-pkg-resources==0.1.3
types-python-dateutil==2.8.3
types-python-dateutil==2.8.4
types-PyYAML==6.0.1
types-requests==2.26.1
types-six==1.16.3
types-requests==2.26.3
types-six==1.16.6
typing_extensions==4.0.1
zipp==3.6.0
zipp==3.7.0
lib/galaxy/dependencies/pinned-requirements.txt
+18 -18
View File
@@ -2,12 +2,12 @@
adal==1.2.7
aiofiles==0.8.0; python_version >= "3.6" and python_version < "4.0"
amqp==5.0.6; python_version >= "3.7"
amqp==5.0.9; python_version >= "3.7"
appdirs==1.4.4
argcomplete==1.12.3; python_version >= "3.6" and python_version < "4"
asgiref==3.4.1; python_version >= "3.6"
attmap==0.13.2
attrs==21.2.0; python_version >= "3.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version >= "3.7"
attrs==21.4.0; python_version >= "3.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version >= "3.7"
babel==2.9.1; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.4.0")
bagit-profile==1.3.1; python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4"
bagit==1.8.1; python_version >= "3.6" and python_full_version < "3.0.0" and python_version < "4" or python_full_version >= "3.5.0" and python_version < "4" and python_version >= "3.6"
@@ -19,10 +19,10 @@ bioblend==0.16.0; python_version >= "3.6"
bleach==4.1.0; python_version >= "3.6"
boltons==21.0.0
boto==2.49.0
bx-python==0.8.12; python_version >= "3.6"
bx-python==0.8.13; python_version >= "3.7"
cachecontrol==0.12.10; python_version >= "3.6" and python_version < "4"
cached-property==1.5.2; python_version < "3.8" and python_version >= "3.7"
celery==5.2.1; python_version >= "3.7"
celery==5.2.3; python_version >= "3.7"
certifi==2021.10.8; python_version >= "3.6" and python_full_version < "3.0.0" and python_version < "4" or python_full_version >= "3.6.0" and python_version < "4" and python_version >= "3.6"
cffi==1.15.0; implementation_name == "pypy" and python_version >= "3.6" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.4.0")
charset-normalizer==2.0.9; python_full_version >= "3.6.0" and python_version >= "3.6" and python_version < "4"
@@ -37,7 +37,7 @@ cloudbridge==3.0.0
colorama==0.4.4; platform_system == "Windows" and python_version >= "3.7" and python_full_version >= "3.6.2" and python_full_version < "4.0.0" and (python_version >= "2.7" and python_full_version < "3.0.0" and platform_system == "Windows" or python_full_version >= "3.5.0" and platform_system == "Windows")
coloredlogs==15.0.1; python_version >= "3.6" and python_full_version < "3.0.0" and python_version < "4" or python_version >= "3.6" and python_version < "4" and python_full_version >= "3.5.0"
commonmark==0.9.1; python_full_version >= "3.6.2" and python_full_version < "4.0.0"
cryptography==36.0.0; python_version >= "3.6" and python_full_version < "3.0.0" and python_version < "4" or python_full_version >= "3.6.0" and python_version < "4" and python_version >= "3.6"
cryptography==36.0.1; python_version >= "3.6" and python_full_version < "3.0.0" and python_version < "4" or python_full_version >= "3.6.0" and python_version < "4" and python_version >= "3.6"
cwltool==3.1.20211107152837; python_version >= "3.6" and python_version < "4"
decorator==5.1.0; python_version >= "3.6" and python_version < "4"
defusedxml==0.7.1; python_version >= "3.0" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version >= "3.0"
@@ -59,16 +59,16 @@ gxformat2==0.15.0
h11==0.12.0; python_version >= "3.6"
h5py==3.6.0; python_version >= "3.7"
humanfriendly==10.0; python_version >= "3.6" and python_full_version < "3.0.0" and python_version < "4" or python_version >= "3.6" and python_version < "4" and python_full_version >= "3.5.0"
idna==3.3; python_version >= "3.6" and python_full_version < "3.0.0" and python_version < "4" or python_full_version >= "3.6.0" and python_version >= "3.6" and python_version < "4"
importlib-metadata==4.8.2; python_version == "3.7" and (python_version >= "3.6" and python_full_version < "3.0.0" and python_version < "3.8" or python_full_version >= "3.6.0" and python_version < "3.8" and python_version >= "3.6")
idna==3.3; python_full_version >= "3.6.2" and python_version >= "3.7" and python_version < "4"
importlib-metadata==4.10.0; python_version == "3.7" and (python_version >= "3.7" and python_full_version < "3.0.0" and python_version < "3.8" or python_full_version >= "3.6.0" and python_version < "3.8" and python_version >= "3.7")
importlib-resources==5.4.0; python_version < "3.9" and python_version >= "3.7"
isa-rwval==0.10.10
isodate==0.6.0; python_version >= "3.7" and python_version < "4"
jsonschema==4.2.1; python_version >= "3.7"
kombu==5.2.2; python_version >= "3.7"
isodate==0.6.1; python_version >= "3.7" and python_version < "4"
jsonschema==4.3.2; python_version >= "3.7"
kombu==5.2.3; python_version >= "3.7"
lagom==1.7.0; python_version >= "3.6" and python_version < "4.0"
lockfile==0.12.2; python_version >= "3.6" and python_version < "4"
lxml==4.6.4; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.5.0")
lxml==4.7.1; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.5.0")
mako==1.1.6; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.4.0")
markdown==3.3.6; python_version >= "3.6"
markupsafe==2.0.1; python_version >= "3.6"
@@ -91,17 +91,17 @@ pastedeploy==2.1.1
pbr==5.8.0; python_version >= "2.6"
prompt-toolkit==3.0.24; python_full_version >= "3.6.2" and python_version >= "3.7"
prov==1.5.1; python_version >= "3.6" and python_version < "4"
psutil==5.8.0; (python_version >= "2.6" and python_full_version < "3.0.0") or (python_full_version >= "3.4.0")
psutil==5.9.0; (python_version >= "2.6" and python_full_version < "3.0.0") or (python_full_version >= "3.4.0")
pulsar-galaxy-lib==0.14.13
py==1.11.0; python_version >= "3.6" and python_full_version < "3.0.0" and implementation_name == "pypy" or implementation_name == "pypy" and python_version >= "3.6" and python_full_version >= "3.5.0"
pyasn1==0.4.8; python_version >= "3.6" and python_version < "4"
pycparser==2.21; python_version >= "3.6" and python_full_version < "3.0.0" and implementation_name == "pypy" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.4.0") or implementation_name == "pypy" and python_version >= "3.6" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.4.0") and python_full_version >= "3.4.0"
pycryptodome==3.12.0; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.5.0")
pydantic==1.8.2; python_version >= "3.6" and python_version < "4.0" and python_full_version >= "3.6.1"
pydantic==1.9.0; python_version >= "3.6" and python_version < "4.0" and python_full_version >= "3.6.1"
pydot==1.4.2; python_version >= "3.6" and python_full_version < "3.0.0" and python_version < "4" or python_version >= "3.6" and python_version < "4" and python_full_version >= "3.4.0"
pyeventsystem==0.1.0
pyfaidx==0.6.3.1
pygments==2.10.0; python_full_version >= "3.6.2" and python_full_version < "4.0.0" and python_version >= "3.5"
pygments==2.11.1; python_full_version >= "3.6.2" and python_full_version < "4.0.0" and python_version >= "3.5"
pyjwt==2.3.0; python_version >= "3.6"
pykwalify==1.8.0
pynacl==1.4.0; python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.4.0"
@@ -124,19 +124,19 @@ repoze.lru==0.7
requests-oauthlib==1.3.0; python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.4.0"
requests-toolbelt==0.9.1; python_version >= "3.6"
requests==2.26.0; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.6.0")
rich==10.15.2; python_full_version >= "3.6.2" and python_full_version < "4.0.0"
rich==10.16.1; python_full_version >= "3.6.2" and python_full_version < "4.0.0"
routes==2.5.1
rsa==4.8; python_version >= "3.6" and python_version < "4"
ruamel.yaml.clib==0.2.6; platform_python_implementation == "CPython" and python_version < "3.10" and python_version >= "3.6"
ruamel.yaml==0.17.17; python_version >= "3.6" and python_version < "4"
schema-salad==8.2.20211116214159; python_version >= "3.6" and python_version < "4"
schema-salad==8.2.20211222191353; python_version >= "3.6" and python_version < "4"
setuptools-scm==5.0.2; python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4"
shellescape==3.8.1; python_version >= "3.6" and python_version < "4"
six==1.16.0; python_version >= "3.7" and python_full_version < "3.0.0" and python_version < "4" or python_full_version >= "3.4.0" and python_version >= "3.7" and python_version < "4"
social-auth-core==4.0.3
sortedcontainers==2.4.0
sqlalchemy-migrate==0.13.0
sqlalchemy==1.4.28; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.6.0")
sqlalchemy==1.4.29; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.6.0")
sqlitedict==1.7.0
sqlparse==0.4.2; python_version >= "3.5"
starlette-context==0.3.3; python_version >= "3.7"
@@ -159,5 +159,5 @@ webencodings==0.5.1; python_version >= "3.6"
webob==1.8.7; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.3.0")
whoosh==2.7.4
yacman==0.8.4
zipp==3.6.0; python_version == "3.7" and (python_version >= "3.6" and python_full_version < "3.0.0" and python_version < "3.8" or python_full_version >= "3.6.0" and python_version < "3.8" and python_version >= "3.6")
zipp==3.7.0; python_version == "3.7" and (python_version >= "3.7" and python_full_version < "3.0.0" and python_version < "3.8" or python_full_version >= "3.6.0" and python_version < "3.8" and python_version >= "3.7")
zipstream-new==1.1.8
packages/app/requirements.txt
+2
View File
@@ -15,7 +15,9 @@ kombu
lagom
Mako
Markdown
paramiko!=2.9.0,!=2.9.1
pulsar-galaxy-lib>=0.14.13
pydantic
pykwalify
refgenconf>=0.12.0
sqlitedict
packages/web_framework/requirements.txt
+1 -1
View File
@@ -4,7 +4,7 @@ galaxy-util
galaxy-web-stack
MarkupSafe
paste
pydantic<1.8
pydantic
requests
Routes
SQLAlchemy>=1.4.25,<2
packages/webapps/requirements.txt
+2 -1
View File
@@ -1,8 +1,9 @@
galaxy-app
Cheetah3
fastapi>=0.68.2,!=0.69.0,!=0.70.0
fastapi>=0.68.2,!=0.69.0,!=0.70.0,!=0.70.1
fastapi-utils
Mako
pydantic
python-multipart # required to support form parsing in FastAPI/Starlette
starlette
typing-extensions
pyproject.toml
+3 -2
View File
@@ -33,7 +33,7 @@ dictobj = "*"
docutils = "!=0.17, !=0.17.1"
edam-ontology = "*"
Fabric3 = "*"
fastapi = ">=0.68.2, !=0.69.0, !=0.70.0" # https://github.com/tiangolo/fastapi/issues/4041
fastapi = ">=0.68.2, !=0.69.0, !=0.70.0, !=0.70.1" # https://github.com/tiangolo/fastapi/issues/4041
fastapi-utils = "*"
fs = "*"
future = "*"
@@ -51,12 +51,13 @@ mrcfile = "*"
nodeenv = "*"
nose = "*"
numpy = "*"
paramiko = "*"
paramiko = "!=2.9.0, !=2.9.1" # https://github.com/paramiko/paramiko/issues/1961
Parsley = "*"
Paste = "*"
psutil = "*"
pulsar-galaxy-lib = ">=0.14.13"
pycryptodome = "*"
pydantic = "*"
pykwalify = "*"
pyparsing = "*"
pysam = "*"