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Merge pull request #14521 from galaxybot/dev_auto_update_dependencies

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Update Python dependencies
This commit is contained in:
Dannon
2022-08-28 14:08:51 -04:00
committed by GitHub
parent 50d068211c 26c41bb684
commit fee6525d71
6 changed files with 44 additions and 58 deletions
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lib/galaxy/datatypes/data.py
+1 -2
View File
@@ -1,4 +1,3 @@
import abc
import logging
import mimetypes
import os
@@ -119,7 +118,7 @@ def get_params_and_input_name(converter, deps, target_context=None):
return params, input_name
class DataMeta(abc.ABCMeta):
class DataMeta(type):
"""
Metaclass for Data class. Sets up metadata spec.
"""
lib/galaxy/dependencies/dev-requirements.txt
+21 -21
View File
@@ -22,7 +22,7 @@ attrs==22.1.0; python_version >= "3.7" and python_version < "4.0"
babel==2.10.3; python_version >= "3.6"
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"
bcrypt==3.2.2; python_version >= "3.6"
bcrypt==4.0.0; python_version >= "3.6"
bdbag==1.6.3; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.5.0" and python_version < "4")
beaker==1.11.0
billiard==3.6.4.0; python_version >= "3.7"
@@ -32,12 +32,12 @@ bleach==5.0.1; python_version >= "3.7"
boltons==21.0.0
boto==2.49.0
bx-python==0.8.13; python_version >= "3.7"
cachecontrol==0.12.11; python_version >= "3.6" and python_version < "4"
cachecontrol==0.12.11; python_version >= "3.6" and python_version <= "3.11"
cached-property==1.5.2; python_version < "3.8" and python_version >= "3.7"
celery==5.2.7; python_version >= "3.7"
certifi==2022.6.15; python_version >= "3.7" and python_full_version < "3.0.0" and python_version < "4" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") or python_full_version >= "3.5.0" and python_version < "4" and python_version >= "3.7" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4")
certifi==2022.6.15; python_version >= "3.7" and python_full_version < "3.0.0" and python_version <= "3.11" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") or python_full_version >= "3.5.0" and python_version <= "3.11" and python_version >= "3.7" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4")
cffi==1.15.1
charset-normalizer==2.1.1; python_version >= "3.7" and python_version < "4" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") and python_full_version >= "3.6.0"
charset-normalizer==2.1.1; python_version >= "3.7" and python_version <= "3.11" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") and python_full_version >= "3.6.0"
cheetah3==3.2.6.post1; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.4.0")
circus==0.17.1
click-didyoumean==0.3.0; python_full_version >= "3.6.2" and python_full_version < "4.0.0" and python_version >= "3.7"
@@ -65,16 +65,16 @@ docutils==0.16; (python_version >= "2.7" and python_full_version < "3.0.0") or (
ecdsa==0.18.0; python_version >= "2.6" and python_full_version < "3.0.0" or python_full_version >= "3.3.0"
edam-ontology==1.25.2
fastapi-utils==0.2.1; python_version >= "3.6" and python_version < "4.0"
fastapi==0.79.1; python_full_version >= "3.6.1"
fastapi==0.81.0; python_full_version >= "3.6.1"
fluent-logger==0.10.0; python_version >= "3.5"
fonttools==4.36.0; python_version >= "3.7"
fonttools==4.37.1; python_version >= "3.7"
frozenlist==1.3.1; python_version >= "3.7"
fs==2.4.16
funcsigs==1.0.2
future==0.18.2; (python_version >= "2.6" and python_full_version < "3.0.0") or (python_full_version >= "3.3.0")
galaxy-sequence-utils==1.1.5
gravity==0.13.3; python_version >= "3.6"
greenlet==1.1.2; python_version >= "3" and python_full_version < "3.0.0" and (platform_machine == "aarch64" or platform_machine == "ppc64le" or platform_machine == "x86_64" or platform_machine == "amd64" or platform_machine == "AMD64" or platform_machine == "win32" or platform_machine == "WIN32") and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.6.0") and (python_version >= "3.7" and python_full_version < "3.0.0" or python_full_version >= "3.6.0" and python_version >= "3.7") and (python_version >= "3.6" and python_full_version < "3.0.0" and python_version < "4.0" or python_version >= "3.6" and python_version < "4.0" and python_full_version >= "3.6.0") or python_version >= "3" and (platform_machine == "aarch64" or platform_machine == "ppc64le" or platform_machine == "x86_64" or platform_machine == "amd64" or platform_machine == "AMD64" or platform_machine == "win32" or platform_machine == "WIN32") and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.6.0") and (python_version >= "3.7" and python_full_version < "3.0.0" or python_full_version >= "3.6.0" and python_version >= "3.7") and (python_version >= "3.6" and python_full_version < "3.0.0" and python_version < "4.0" or python_version >= "3.6" and python_version < "4.0" and python_full_version >= "3.6.0") and python_full_version >= "3.5.0"
greenlet==1.1.3; python_version >= "3" and python_full_version < "3.0.0" and (platform_machine == "aarch64" or platform_machine == "ppc64le" or platform_machine == "x86_64" or platform_machine == "amd64" or platform_machine == "AMD64" or platform_machine == "win32" or platform_machine == "WIN32") and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.6.0") and (python_version >= "3.7" and python_full_version < "3.0.0" or python_full_version >= "3.6.0" and python_version >= "3.7") and (python_version >= "3.6" and python_full_version < "3.0.0" and python_version < "4.0" or python_version >= "3.6" and python_version < "4.0" and python_full_version >= "3.6.0") or python_version >= "3" and (platform_machine == "aarch64" or platform_machine == "ppc64le" or platform_machine == "x86_64" or platform_machine == "amd64" or platform_machine == "AMD64" or platform_machine == "win32" or platform_machine == "WIN32") and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.6.0") and (python_version >= "3.7" and python_full_version < "3.0.0" or python_full_version >= "3.6.0" and python_version >= "3.7") and (python_version >= "3.6" and python_full_version < "3.0.0" and python_version < "4.0" or python_version >= "3.6" and python_version < "4.0" and python_full_version >= "3.6.0") and python_full_version >= "3.5.0"
gunicorn==20.1.0; python_version >= "3.5"
gxformat2==0.15.0
h11==0.12.0; python_version >= "3.7" and python_version < "4.0" and python_full_version >= "3.7.0"
@@ -82,22 +82,22 @@ h5py==3.7.0; python_version >= "3.7"
httpcore==0.15.0; python_version >= "3.7"
httpx==0.23.0; 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 >= "3.7" and python_version < "4" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") and python_full_version >= "3.6.2"
idna==3.3; python_version >= "3.7" and python_version <= "3.11" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") and python_full_version >= "3.6.2"
imagesize==1.4.1; 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==4.12.0; 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") and python_full_version >= "3.6.2" and (python_version >= "3.6" and python_full_version < "3.0.0" or python_full_version >= "3.4.0" and python_version >= "3.6")
importlib-resources==5.9.0; python_version >= "3.7"
iniconfig==1.1.1; python_version >= "3.7"
isa-rwval==0.10.10
isodate==0.6.1; python_version >= "3.7" and python_version < "4"
isodate==0.6.1; python_version >= "3.7" and python_version <= "3.11"
isort==5.10.1; python_full_version >= "3.6.1" and python_version < "4.0"
jinja2==3.1.2; python_version >= "3.7" and python_full_version < "3.0.0" or python_full_version >= "3.4.0" and python_version >= "3.7"
jsonref==0.2; python_version >= "3.6"
jsonschema==4.13.0; python_version >= "3.7"
jsonschema==4.14.0; python_version >= "3.7"
junit-xml==1.9; python_version >= "3.6" and python_version < "4"
kiwisolver==1.4.4; python_version >= "3.7"
kombu==5.2.4; python_version >= "3.7"
lagom==1.7.1; python_version >= "3.6" and python_version < "4.0"
lockfile==0.12.2; python_version >= "3.6" and python_version < "4"
lockfile==0.12.2; python_version >= "3.6" and python_version <= "3.11"
lxml==4.9.1; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.5.0")
mako==1.2.1; python_version >= "3.7"
markdown-it-reporter==0.0.2
@@ -106,9 +106,9 @@ markupsafe==2.1.1; python_version >= "3.7"
matplotlib==3.5.3; python_version >= "3.7"
mercurial==6.2.1
mirakuru==2.4.2; python_version >= "3.7"
mistune==0.8.4; python_version >= "3.6" and python_version < "4"
mistune==0.8.4; python_version >= "3.6" and python_version <= "3.11"
mrcfile==1.4.2
msgpack==1.0.4; python_version >= "3.6" and python_version < "4"
msgpack==1.0.4; python_version >= "3.6" and python_version <= "3.11"
multidict==6.0.2; python_version >= "3.7"
mypy-extensions==0.4.3; python_version >= "3.7" and python_version < "4" and python_full_version >= "3.6.2"
networkx==2.5; python_version >= "3.6" and python_version < "4"
@@ -132,7 +132,7 @@ pkgutil-resolve-name==1.3.10; python_version < "3.9" and python_version >= "3.7"
platformdirs==2.5.2; python_version >= "3.7" and python_full_version >= "3.6.2"
pluggy==1.0.0; python_version >= "3.7"
port-for==0.6.2; python_version >= "3.7"
prettytable==3.3.0; python_version >= "3.7"
prettytable==3.4.0; python_version >= "3.7"
prompt-toolkit==3.0.30; python_full_version >= "3.6.2" and python_version >= "3.7"
prov==1.5.1; python_version >= "3.6" and python_version < "4"
psutil==5.9.1; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.4.0")
@@ -156,7 +156,7 @@ pyreadline3==3.4.1; sys_platform == "win32" and python_version >= "3.8" and (pyt
pyreadline==2.1; sys_platform == "win32" and python_version < "3.8" and (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")
pyrsistent==0.18.1; python_version >= "3.7"
pysam==0.19.1
pysocks==1.7.1; python_version >= "3.7" and python_full_version < "3.0.0" and python_version < "4" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") or python_full_version >= "3.6.0" and python_version < "4" and python_version >= "3.7" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4")
pysocks==1.7.1; python_version >= "3.7" and python_full_version < "3.0.0" and python_version <= "3.11" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") or python_full_version >= "3.6.0" and python_version <= "3.11" and python_version >= "3.7" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4")
pytest-asyncio==0.19.0; python_version >= "3.7"
pytest-celery==0.0.0
pytest-cov==3.0.0; python_version >= "3.6"
@@ -176,7 +176,7 @@ python3-openid==3.2.0; python_version >= "3.0"
pytz==2022.2.1; python_version >= "3.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4" and python_version >= "3.7"
pyyaml==6.0; python_version >= "3.6"
pyzmq==23.2.1; python_version >= "3.6"
rdflib==6.0.2; python_version >= "3.7" and python_version < "4"
rdflib==6.0.2; python_version >= "3.7" and python_version <= "3.11"
recommonmark==0.7.1
refgenconf==0.12.2
repoze.lru==0.7
@@ -190,12 +190,12 @@ routes==2.5.1
rsa==4.9; python_version >= "3.6" and python_version < "4"
ruamel.yaml.clib==0.2.6
ruamel.yaml==0.17.17
schema-salad==8.3.20220801194920; python_version >= "3.6"
schema-salad==8.3.20220825133457; python_version >= "3.6" and python_version <= "3.11"
scipy==1.7.3; python_version >= "3.7" and python_version < "3.11"
selenium==4.4.3; python_version >= "3.7" and python_version < "4.0"
setuptools-scm==5.0.2; python_version >= "3.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4" and python_version >= "3.7"
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 >= "3.3.0" and python_version >= "3.7" and python_version < "4"
six==1.16.0; python_version >= "3.7" and python_full_version < "3.0.0" and python_version <= "3.11" or python_full_version >= "3.3.0" and python_version >= "3.7" and python_version <= "3.11"
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
@@ -236,8 +236,8 @@ typed-ast==1.5.4; python_version < "3.8" and implementation_name == "cpython" an
typing-extensions==4.3.0; python_version >= "3.7"
tzlocal==2.1; python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4"
ubiquerg==0.6.2
urllib3==1.26.11; python_version >= "3.7" and python_full_version < "3.0.0" and python_version < "4" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") or python_full_version >= "3.6.0" and python_version < "4" and python_version >= "3.7" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4")
uvicorn==0.18.2; python_version >= "3.7"
urllib3==1.26.12; python_version >= "3.7" and python_full_version < "3.0.0" and python_version <= "3.11" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") or python_full_version >= "3.6.0" and python_version <= "3.11" and python_version >= "3.7" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4")
uvicorn==0.18.3; python_version >= "3.7"
uvloop==0.16.0; python_version >= "3.7"
vine==5.0.0; python_version >= "3.7"
watchdog==2.1.9; python_version >= "3.6"
@@ -246,7 +246,7 @@ webencodings==0.5.1; python_version >= "3.7"
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
wrapt==1.14.1; python_version >= "3.6" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version >= "3.6"
wsproto==1.1.0; python_version >= "3.7" and python_version < "4.0" and python_full_version >= "3.7.0"
wsproto==1.2.0; python_version >= "3.7" and python_version < "4.0" and python_full_version >= "3.7.0"
yacman==0.8.4
yarl==1.8.1; python_version >= "3.7"
zipp==3.8.1; python_version < "3.8" and 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")
lib/galaxy/dependencies/pinned-lint-requirements.txt
+4 -4
View File
@@ -1,6 +1,6 @@
attrs==22.1.0
flake8==5.0.4
flake8-bugbear==22.7.1
flake8-bugbear==22.8.23
importlib-metadata==4.2.0
mccabe==0.7.0
mypy==0.971
@@ -12,16 +12,16 @@ typed-ast==1.5.4
types-bleach==5.0.3
types-boto==2.49.17
types-contextvars==2.4.7
types-cryptography==3.3.22
types-cryptography==3.3.23
types-dataclasses==0.6.6
types-docutils==0.19.0
types-Markdown==3.4.0
types-Markdown==3.4.1
types-paramiko==2.11.3
types-pkg-resources==0.1.3
types-python-dateutil==2.8.19
types-PyYAML==6.0.11
types-requests==2.28.9
types-six==1.16.18
types-six==1.16.19
types-urllib3==1.26.23
typing_extensions==4.3.0
zipp==3.8.1
lib/galaxy/dependencies/pinned-requirements.txt
+17 -17
View File
@@ -18,7 +18,7 @@ attrs==22.1.0; python_version >= "3.7"
babel==2.10.3; python_version >= "3.6"
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"
bcrypt==3.2.2; python_version >= "3.6"
bcrypt==4.0.0; python_version >= "3.6"
bdbag==1.6.3; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.5.0" and python_version < "4")
beaker==1.11.0
billiard==3.6.4.0; python_version >= "3.7"
@@ -27,12 +27,12 @@ bleach==5.0.1; python_version >= "3.7"
boltons==21.0.0
boto==2.49.0
bx-python==0.8.13; python_version >= "3.7"
cachecontrol==0.12.11; python_version >= "3.6" and python_version < "4"
cachecontrol==0.12.11; python_version >= "3.6" and python_version <= "3.11"
cached-property==1.5.2; python_version < "3.8" and python_version >= "3.7"
celery==5.2.7; python_version >= "3.7"
certifi==2022.6.15; python_version >= "3.7" and python_full_version < "3.0.0" and python_version < "4" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") or python_full_version >= "3.5.0" and python_version < "4" and python_version >= "3.7" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4")
certifi==2022.6.15; python_version >= "3.7" and python_full_version < "3.0.0" and python_version <= "3.11" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") or python_full_version >= "3.5.0" and python_version <= "3.11" and python_version >= "3.7" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4")
cffi==1.15.1; implementation_name == "pypy" and python_version >= "3.6"
charset-normalizer==2.1.1; python_version >= "3.7" and python_version < "4" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") and python_full_version >= "3.6.0"
charset-normalizer==2.1.1; python_version >= "3.7" and python_version <= "3.11" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") and python_full_version >= "3.6.0"
cheetah3==3.2.6.post1; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.4.0")
circus==0.17.1
click-didyoumean==0.3.0; python_full_version >= "3.6.2" and python_full_version < "4.0.0" and python_version >= "3.7"
@@ -55,37 +55,37 @@ docutils==0.16; (python_version >= "2.7" and python_full_version < "3.0.0") or (
ecdsa==0.18.0; python_version >= "2.6" and python_full_version < "3.0.0" or python_full_version >= "3.3.0"
edam-ontology==1.25.2
fastapi-utils==0.2.1; python_version >= "3.6" and python_version < "4.0"
fastapi==0.79.1; python_full_version >= "3.6.1"
fastapi==0.81.0; python_full_version >= "3.6.1"
frozenlist==1.3.1; python_version >= "3.7"
fs==2.4.16
funcsigs==1.0.2
future==0.18.2; (python_version >= "2.6" and python_full_version < "3.0.0") or (python_full_version >= "3.3.0")
galaxy-sequence-utils==1.1.5
gravity==0.13.3; python_version >= "3.6"
greenlet==1.1.2; python_version >= "3" and python_full_version < "3.0.0" and (platform_machine == "aarch64" or platform_machine == "ppc64le" or platform_machine == "x86_64" or platform_machine == "amd64" or platform_machine == "AMD64" or platform_machine == "win32" or platform_machine == "WIN32") and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.6.0") and (python_version >= "3.7" and python_full_version < "3.0.0" or python_full_version >= "3.6.0" and python_version >= "3.7") and (python_version >= "3.6" and python_full_version < "3.0.0" and python_version < "4.0" or python_version >= "3.6" and python_version < "4.0" and python_full_version >= "3.6.0") or python_version >= "3" and (platform_machine == "aarch64" or platform_machine == "ppc64le" or platform_machine == "x86_64" or platform_machine == "amd64" or platform_machine == "AMD64" or platform_machine == "win32" or platform_machine == "WIN32") and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.6.0") and (python_version >= "3.7" and python_full_version < "3.0.0" or python_full_version >= "3.6.0" and python_version >= "3.7") and (python_version >= "3.6" and python_full_version < "3.0.0" and python_version < "4.0" or python_version >= "3.6" and python_version < "4.0" and python_full_version >= "3.6.0") and python_full_version >= "3.5.0"
greenlet==1.1.3; python_version >= "3" and python_full_version < "3.0.0" and (platform_machine == "aarch64" or platform_machine == "ppc64le" or platform_machine == "x86_64" or platform_machine == "amd64" or platform_machine == "AMD64" or platform_machine == "win32" or platform_machine == "WIN32") and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.6.0") and (python_version >= "3.7" and python_full_version < "3.0.0" or python_full_version >= "3.6.0" and python_version >= "3.7") and (python_version >= "3.6" and python_full_version < "3.0.0" and python_version < "4.0" or python_version >= "3.6" and python_version < "4.0" and python_full_version >= "3.6.0") or python_version >= "3" and (platform_machine == "aarch64" or platform_machine == "ppc64le" or platform_machine == "x86_64" or platform_machine == "amd64" or platform_machine == "AMD64" or platform_machine == "win32" or platform_machine == "WIN32") and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.6.0") and (python_version >= "3.7" and python_full_version < "3.0.0" or python_full_version >= "3.6.0" and python_version >= "3.7") and (python_version >= "3.6" and python_full_version < "3.0.0" and python_version < "4.0" or python_version >= "3.6" and python_version < "4.0" and python_full_version >= "3.6.0") and python_full_version >= "3.5.0"
gunicorn==20.1.0; python_version >= "3.5"
gxformat2==0.15.0
h11==0.12.0; python_version >= "3.7"
h5py==3.7.0; 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 >= "3.7" and python_version < "4" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") and python_full_version >= "3.6.2"
idna==3.3; python_version >= "3.7" and python_version <= "3.11" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") and python_full_version >= "3.6.2"
importlib-metadata==4.12.0; 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==5.9.0; python_version >= "3.7"
isa-rwval==0.10.10
isodate==0.6.1; python_version >= "3.7" and python_version < "4"
isodate==0.6.1; python_version >= "3.7" and python_version <= "3.11"
jsonref==0.2; python_version >= "3.6"
jsonschema==4.13.0; python_version >= "3.7"
jsonschema==4.14.0; python_version >= "3.7"
kombu==5.2.4; python_version >= "3.7"
lagom==1.7.1; python_version >= "3.6" and python_version < "4.0"
lockfile==0.12.2; python_version >= "3.6" and python_version < "4"
lockfile==0.12.2; python_version >= "3.6" and python_version <= "3.11"
lxml==4.9.1; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.5.0")
mako==1.2.1; python_version >= "3.7"
markdown==3.4.1; python_version >= "3.7"
markupsafe==2.1.1; python_version >= "3.7"
mercurial==6.2.1
mistune==0.8.4; python_version >= "3.6" and python_version < "4"
mistune==0.8.4; python_version >= "3.6" and python_version <= "3.11"
mrcfile==1.4.2
msgpack==1.0.4; python_version >= "3.6" and python_version < "4"
msgpack==1.0.4; python_version >= "3.6" and python_version <= "3.11"
multidict==6.0.2; python_version >= "3.7"
mypy-extensions==0.4.3; python_version >= "3.6" and python_version < "4"
networkx==2.5; python_version >= "3.6" and python_version < "4"
@@ -132,7 +132,7 @@ python3-openid==3.2.0; python_version >= "3.0"
pytz==2022.2.1; python_version >= "3.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4" and python_version >= "3.7"
pyyaml==6.0; python_version >= "3.6"
pyzmq==23.2.1; python_version >= "3.6"
rdflib==6.0.2; python_version >= "3.7" and python_version < "4"
rdflib==6.0.2; python_version >= "3.7" and python_version <= "3.11"
refgenconf==0.12.2
repoze.lru==0.7
requests-oauthlib==1.3.1; python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.4.0"
@@ -143,10 +143,10 @@ routes==2.5.1
rsa==4.9; python_version >= "3.6" and python_version < "4"
ruamel.yaml.clib==0.2.6
ruamel.yaml==0.17.17
schema-salad==8.3.20220801194920; python_version >= "3.6"
schema-salad==8.3.20220825133457; python_version >= "3.6" and python_version <= "3.11"
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 >= "3.3.0" and python_version >= "3.7" and python_version < "4"
six==1.16.0; python_version >= "3.7" and python_full_version < "3.0.0" and python_version <= "3.11" or python_full_version >= "3.3.0" and python_version >= "3.7" and python_version <= "3.11"
sniffio==1.2.0; python_version >= "3.7" and python_full_version >= "3.6.2"
social-auth-core==4.0.3
sortedcontainers==2.4.0
@@ -169,8 +169,8 @@ tuswsgi==0.5.4
typing-extensions==4.3.0; python_version >= "3.7"
tzlocal==2.1; python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4"
ubiquerg==0.6.2
urllib3==1.26.11; python_version >= "3.7" and python_full_version < "3.0.0" and python_version < "4" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") or python_full_version >= "3.6.0" and python_version < "4" and python_version >= "3.7" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4")
uvicorn==0.18.2; python_version >= "3.7"
urllib3==1.26.12; python_version >= "3.7" and python_full_version < "3.0.0" and python_version <= "3.11" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") or python_full_version >= "3.6.0" and python_version <= "3.11" and python_version >= "3.7" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4")
uvicorn==0.18.3; python_version >= "3.7"
uvloop==0.16.0; python_version >= "3.7"
vine==5.0.0; python_version >= "3.7"
wcwidth==0.2.5; python_full_version >= "3.6.2" and python_version >= "3.7"
lib/galaxy/tool_util/cwl/parser.py
-12
View File
@@ -1115,18 +1115,6 @@ def remove_pickle_problems(obj):
return obj
class WorkflowToolReference(metaclass=ABCMeta):
pass
class EmbeddedWorkflowToolReference(WorkflowToolReference):
pass
class ExternalWorkflowToolReference(WorkflowToolReference):
pass
def _outer_field_to_input_instance(field):
field_type = field_to_field_type(field) # Must be a list if in here?
if not isinstance(field_type, list):
test/unit/security/test_vault.py
+1 -2
View File
@@ -2,7 +2,6 @@ import os
import string
import tempfile
import unittest
from abc import ABC
from cryptography.fernet import InvalidToken
@@ -17,7 +16,7 @@ from galaxy.security.vault import (
)
class VaultTestBase(ABC):
class VaultTestBase:
vault: Vault
def test_read_write_secret(self):