From 8874052034f5ae58a953d4e1134bb4212fdcd95d Mon Sep 17 00:00:00 2001 From: galaxybot Date: Sat, 28 May 2022 03:30:11 +0000 Subject: [PATCH] Update Python dependencies --- lib/galaxy/dependencies/dev-requirements.txt | 38 +++++++++---------- .../dependencies/pinned-lint-requirements.txt | 14 +++---- .../dependencies/pinned-requirements.txt | 24 ++++++------ 3 files changed, 38 insertions(+), 38 deletions(-) diff --git a/lib/galaxy/dependencies/dev-requirements.txt b/lib/galaxy/dependencies/dev-requirements.txt index 32094efb606..849ce70782c 100644 --- a/lib/galaxy/dependencies/dev-requirements.txt +++ b/lib/galaxy/dependencies/dev-requirements.txt @@ -29,7 +29,7 @@ bleach==5.0.0; 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 >= "3.7" and python_version < "4" +cachecontrol==0.12.11; python_version >= "3.6" and python_version < "4" cached-property==1.5.2; python_version < "3.8" and python_version >= "3.7" celery==5.2.6; python_version >= "3.7" certifi==2022.5.18.1; 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" @@ -46,7 +46,7 @@ cloudbridge==3.0.0 colorama==0.4.4; sys_platform == "win32" and python_version >= "3.7" and python_full_version >= "3.6.2" and platform_system == "Windows" 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") and (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 >= "3.5.0") and (python_version >= "3.6" and python_full_version < "3.0.0" and sys_platform == "win32" and (python_version >= "3.6" and python_full_version < "3.0.0" or python_full_version >= "3.4.0" and python_version >= "3.6") or sys_platform == "win32" 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") and python_full_version >= "3.5.0") 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 >= "3.6.3" and python_full_version < "4.0.0" -coverage==6.3.3; python_version >= "3.7" +coverage==6.4; python_version >= "3.7" cryptography==37.0.2; 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" @@ -75,13 +75,13 @@ greenlet==1.1.2; python_version >= "3" and python_full_version < "3.0.0" and (pl 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" -h5py==3.6.0; python_version >= "3.7" -httpcore==0.14.7; python_version >= "3.6" -httpx==0.22.0; python_version >= "3.6" +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 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==4.11.3; 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-metadata==4.11.4; 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==5.7.1; python_version >= "3.7" iniconfig==1.1.1; python_version >= "3.7" isa-rwval==0.10.10 @@ -93,8 +93,8 @@ jsonschema==4.5.1; python_version >= "3.7" junit-xml==1.9; python_version >= "3.6" and python_version < "4" kiwisolver==1.4.2; python_version >= "3.7" kombu==5.2.4; python_version >= "3.7" -lagom==1.7.0; python_version >= "3.6" and python_version < "4.0" -lockfile==0.12.2; python_version >= "3.7" and python_version < "4" +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" lxml==4.8.0; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.5.0") mako==1.2.0; python_version >= "3.7" markdown-it-reporter==0.0.2 @@ -103,9 +103,9 @@ markupsafe==2.1.1; python_version >= "3.7" matplotlib==3.5.2; python_version >= "3.7" mercurial==6.1.2 mirakuru==2.4.2; python_version >= "3.7" -mistune==0.8.4; python_version >= "3.7" and python_version < "4" +mistune==0.8.4; python_version >= "3.6" and python_version < "4" mrcfile==1.3.0 -msgpack==1.0.3; python_version >= "3.7" and python_version < "4" +msgpack==1.0.3; python_version >= "3.6" and python_version < "4" 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" nodeenv==1.6.0 @@ -150,7 +150,7 @@ pyparsing==3.0.9; python_full_version >= "3.6.8" pyreadline3==3.4.1; 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") 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==0.19.0 +pysam==0.19.1 pysocks==1.7.1; 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" pytest-asyncio==0.18.3; python_version >= "3.7" pytest-celery==0.0.0 @@ -165,7 +165,7 @@ pytest==7.1.2; python_version >= "3.7" python-dateutil==2.8.2; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.3.0") python-irodsclient==1.1.3 python-jose==3.3.0 -python-magic==0.4.25; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.5.0") +python-magic==0.4.26; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.5.0") python-multipart==0.0.5 python3-openid==3.2.0; python_version >= "3.0" pytz==2022.1; 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" @@ -178,16 +178,16 @@ 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" requests-toolbelt==0.9.1; python_version >= "3.7" requests==2.27.1; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.6.0") -responses==0.20.0; python_version >= "3.7" -rfc3986==1.5.0; python_version >= "3.6" -rich==12.4.1; python_full_version >= "3.6.3" and python_full_version < "4.0.0" +responses==0.21.0; python_version >= "3.7" +rfc3986==1.5.0; python_version >= "3.7" +rich==12.4.4; python_full_version >= "3.6.3" 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 >= "3.7" and python_version < "4" -schema-salad==8.3.20220518163624; python_version >= "3.7" and python_version < "4" +ruamel.yaml==0.17.17; python_version >= "3.6" and python_version < "4" +schema-salad==8.3.20220525163636; python_version >= "3.6" and python_version < "4" scipy==1.7.3; python_version >= "3.7" and python_version < "3.11" -selenium==4.1.5; python_version >= "3.7" and python_version < "4.0" +selenium==4.2.0; 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" @@ -227,7 +227,7 @@ trio==0.20.0; python_version >= "3.7" and python_version < "4.0" tuspy==0.2.5 tuswsgi==0.5.4 twill==3.0.2 -typed-ast==1.5.3; python_version < "3.8" and implementation_name == "cpython" and python_full_version >= "3.6.2" and python_version >= "3.7" +typed-ast==1.5.4; python_version < "3.8" and implementation_name == "cpython" and python_full_version >= "3.6.2" and python_version >= "3.7" typing-extensions==4.2.0; 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 diff --git a/lib/galaxy/dependencies/pinned-lint-requirements.txt b/lib/galaxy/dependencies/pinned-lint-requirements.txt index 1958e75ff25..21f48a26249 100644 --- a/lib/galaxy/dependencies/pinned-lint-requirements.txt +++ b/lib/galaxy/dependencies/pinned-lint-requirements.txt @@ -3,25 +3,25 @@ flake8==4.0.1 flake8-bugbear==22.4.25 importlib-metadata==4.2.0 mccabe==0.6.1 -mypy==0.950 +mypy==0.960 mypy-extensions==0.4.3 pycodestyle==2.8.0 pyflakes==2.4.0 tomli==2.0.1 -typed-ast==1.5.3 +typed-ast==1.5.4 types-bleach==5.0.2 types-boto==2.49.15 -types-contextvars==2.4.5 +types-contextvars==2.4.6 types-cryptography==3.3.21 types-dataclasses==0.6.5 types-docutils==0.18.3 -types-Markdown==3.3.21 +types-Markdown==3.3.23 types-paramiko==2.10.0 types-pkg-resources==0.1.3 -types-python-dateutil==2.8.16 +types-python-dateutil==2.8.17 types-PyYAML==6.0.7 -types-requests==2.27.27 +types-requests==2.27.29 types-six==1.16.15 -types-urllib3==1.26.14 +types-urllib3==1.26.15 typing_extensions==4.2.0 zipp==3.8.0 diff --git a/lib/galaxy/dependencies/pinned-requirements.txt b/lib/galaxy/dependencies/pinned-requirements.txt index f726cae7e36..13ef0a00426 100644 --- a/lib/galaxy/dependencies/pinned-requirements.txt +++ b/lib/galaxy/dependencies/pinned-requirements.txt @@ -24,7 +24,7 @@ bleach==5.0.0; 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 >= "3.7" and python_version < "4" +cachecontrol==0.12.11; python_version >= "3.6" and python_version < "4" cached-property==1.5.2; python_version < "3.8" and python_version >= "3.7" celery==5.2.6; python_version >= "3.7" certifi==2022.5.18.1; 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" @@ -63,26 +63,26 @@ greenlet==1.1.2; python_version >= "3" and python_full_version < "3.0.0" and (pl gunicorn==20.1.0; python_version >= "3.5" gxformat2==0.15.0 h11==0.12.0; python_version >= "3.7" -h5py==3.6.0; 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_full_version >= "3.6.2" and python_version >= "3.7" and python_version < "4" -importlib-metadata==4.11.3; 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-metadata==4.11.4; 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==5.7.1; python_version >= "3.7" isa-rwval==0.10.10 isodate==0.6.1; python_version >= "3.7" and python_version < "4" jsonref==0.2; python_version >= "3.6" jsonschema==4.5.1; python_version >= "3.7" kombu==5.2.4; python_version >= "3.7" -lagom==1.7.0; python_version >= "3.6" and python_version < "4.0" -lockfile==0.12.2; python_version >= "3.7" and python_version < "4" +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" lxml==4.8.0; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.5.0") mako==1.2.0; python_version >= "3.7" markdown==3.3.7; python_version >= "3.6" markupsafe==2.1.1; python_version >= "3.7" mercurial==6.1.2 -mistune==0.8.4; python_version >= "3.7" and python_version < "4" +mistune==0.8.4; python_version >= "3.6" and python_version < "4" mrcfile==1.3.0 -msgpack==1.0.3; python_version >= "3.7" and python_version < "4" +msgpack==1.0.3; python_version >= "3.6" and python_version < "4" mypy-extensions==0.4.3; python_version >= "3.6" and python_version < "4" networkx==2.5; python_version >= "3.6" and python_version < "4" nodeenv==1.6.0 @@ -117,10 +117,10 @@ pyparsing==3.0.9; python_full_version >= "3.6.8" pyreadline3==3.4.1; 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") 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==0.19.0 +pysam==0.19.1 python-dateutil==2.8.2; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.3.0") python-jose==3.3.0 -python-magic==0.4.25; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.5.0") +python-magic==0.4.26; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.5.0") python-multipart==0.0.5 python3-openid==3.2.0; python_version >= "3.0" pytz==2022.1; 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" @@ -132,12 +132,12 @@ 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" requests-toolbelt==0.9.1; python_version >= "3.7" requests==2.27.1; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.6.0") -rich==12.4.1; python_full_version >= "3.6.3" and python_full_version < "4.0.0" +rich==12.4.4; python_full_version >= "3.6.3" 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 >= "3.7" and python_version < "4" -schema-salad==8.3.20220518163624; python_version >= "3.7" and python_version < "4" +ruamel.yaml==0.17.17; python_version >= "3.6" and python_version < "4" +schema-salad==8.3.20220525163636; 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 >= "3.3.0" and python_version >= "3.7" and python_version < "4"