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paulscherrerinstitute / alphafold-on-fire

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Bump ruff from 0.1.14 to 0.3.0 in /backend #529

Closed dependabot[bot] closed 8 months ago

dependabot[bot] commented 8 months ago

Bumps ruff from 0.1.14 to 0.3.0.

Release notes

Sourced from ruff's releases.

v0.3.0

This release introduces the new Ruff formatter 2024.2 style and adds a new lint rule to detect invalid formatter suppression comments.

Changes

Preview features

  • [flake8-bandit] Remove suspicious-lxml-import (S410) (#10154)
  • [pycodestyle] Allow os.environ modifications between imports (E402) (#10066)
  • [pycodestyle] Don't warn about a single whitespace character before a comma in a tuple (E203) (#10094)

Rule changes

  • [eradicate] Detect commented out case statements (ERA001) (#10055)
  • [eradicate] Detect single-line code for try:, except:, etc. (ERA001) (#10057)
  • [flake8-boolean-trap] Allow boolean positionals in __post_init__ (#10027)
  • [flake8-copyright] Allow © in copyright notices (#10065)
  • [isort]: Use one blank line after imports in typing stub files (#9971)
  • [pylint] New Rule dict-iter-missing-items (PLE1141) (#9845)
  • [pylint] Ignore sys.version and sys.platform (PLR1714) (#10054)
  • [pyupgrade] Detect literals with unary operators (UP018) (#10060)
  • [ruff] Expand rule for list(iterable).pop(0) idiom (RUF015) (#10148)

Formatter

This release introduces the Ruff 2024.2 style, stabilizing the following changes:

  • Prefer splitting the assignment's value over the target or type annotation (#8943)
  • Remove blank lines before class docstrings (#9154)
  • Wrap multiple context managers in with parentheses when targeting Python 3.9 or newer (#9222)
  • Add a blank line after nested classes with a dummy body (...) in typing stub files (#9155)
  • Reduce vertical spacing for classes and functions with a dummy (...) body (#7440, #9240)
  • Add a blank line after the module docstring (#8283)
  • Parenthesize long type hints in assignments (#9210)
  • Preserve indent for single multiline-string call-expressions (#9673)
  • Normalize hex escape and unicode escape sequences (#9280)
  • Format module docstrings (#9725)

CLI

  • Explicitly disallow extend as part of a --config flag (#10135)
  • Remove build from the default exclusion list (#10093)
  • Deprecate ruff <path>, ruff --explain, ruff --clean, and ruff --generate-shell-completion in favor of ruff check <path>, ruff rule, ruff clean, and ruff generate-shell-completion (#10169)
  • Remove the deprecated CLI option --format from ruff rule and ruff linter (#10170)

Bug fixes

  • [flake8-bugbear] Avoid adding default initializers to stubs (B006) (#10152)
  • [flake8-type-checking] Respect runtime-required decorators for function signatures (#10091)

... (truncated)

Changelog

Sourced from ruff's changelog.

0.3.0

This release introduces the new Ruff formatter 2024.2 style and adds a new lint rule to detect invalid formatter suppression comments.

Preview features

  • [flake8-bandit] Remove suspicious-lxml-import (S410) (#10154)
  • [pycodestyle] Allow os.environ modifications between imports (E402) (#10066)
  • [pycodestyle] Don't warn about a single whitespace character before a comma in a tuple (E203) (#10094)

Rule changes

  • [eradicate] Detect commented out case statements (ERA001) (#10055)
  • [eradicate] Detect single-line code for try:, except:, etc. (ERA001) (#10057)
  • [flake8-boolean-trap] Allow boolean positionals in __post_init__ (#10027)
  • [flake8-copyright] Allow © in copyright notices (#10065)
  • [isort]: Use one blank line after imports in typing stub files (#9971)
  • [pylint] New Rule dict-iter-missing-items (PLE1141) (#9845)
  • [pylint] Ignore sys.version and sys.platform (PLR1714) (#10054)
  • [pyupgrade] Detect literals with unary operators (UP018) (#10060)
  • [ruff] Expand rule for list(iterable).pop(0) idiom (RUF015) (#10148)

Formatter

This release introduces the Ruff 2024.2 style, stabilizing the following changes:

  • Prefer splitting the assignment's value over the target or type annotation (#8943)
  • Remove blank lines before class docstrings (#9154)
  • Wrap multiple context managers in with parentheses when targeting Python 3.9 or newer (#9222)
  • Add a blank line after nested classes with a dummy body (...) in typing stub files (#9155)
  • Reduce vertical spacing for classes and functions with a dummy (...) body (#7440, #9240)
  • Add a blank line after the module docstring (#8283)
  • Parenthesize long type hints in assignments (#9210)
  • Preserve indent for single multiline-string call-expressions (#9673)
  • Normalize hex escape and unicode escape sequences (#9280)
  • Format module docstrings (#9725)

CLI

  • Explicitly disallow extend as part of a --config flag (#10135)
  • Remove build from the default exclusion list (#10093)
  • Deprecate ruff <path>, ruff --explain, ruff --clean, and ruff --generate-shell-completion in favor of ruff check <path>, ruff rule, ruff clean, and ruff generate-shell-completion (#10169)
  • Remove the deprecated CLI option --format from ruff rule and ruff linter (#10170)

Bug fixes

  • [flake8-bugbear] Avoid adding default initializers to stubs (B006) (#10152)
  • [flake8-type-checking] Respect runtime-required decorators for function signatures (#10091)
  • [pycodestyle] Mark fixes overlapping with a multiline string as unsafe (W293) (#10049)

... (truncated)

Commits


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codecov[bot] commented 8 months ago

Codecov Report

All modified and coverable lines are covered by tests :white_check_mark:

Project coverage is 100.00%. Comparing base (de3ef77) to head (a91350c).

Additional details and impacted files ```diff @@ Coverage Diff @@ ## main #529 +/- ## ========================================= Coverage 100.00% 100.00% ========================================= Files 7 7 Lines 105 105 ========================================= Hits 105 105 ``` | [Flag](https://app.codecov.io/gh/paulscherrerinstitute/alphafold-on-fire/pull/529/flags?src=pr&el=flags&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=paulscherrerinstitute) | Coverage Δ | | |---|---|---| | [backend](https://app.codecov.io/gh/paulscherrerinstitute/alphafold-on-fire/pull/529/flags?src=pr&el=flag&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=paulscherrerinstitute) | `100.00% <ø> (ø)` | | Flags with carried forward coverage won't be shown. [Click here](https://docs.codecov.io/docs/carryforward-flags?utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=paulscherrerinstitute#carryforward-flags-in-the-pull-request-comment) to find out more.

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github-actions[bot] commented 8 months ago

Overview

Image reference psisharedsharedchncr001.azurecr.io/alphafold:edge psisharedsharedchncr001.azurecr.io/alphafold:pr-529
- digest 35cc0232bf90 4f4ef8291339
- provenance https://github.com/paulscherrerinstitute/alphafold-on-fire/commit/de3ef7709d4a18edecd940fd654063e7e3e5b6a6 https://github.com/paulscherrerinstitute/alphafold-on-fire/commit/a91350c79221d5f3b300c4cbd9f8590546937ba1
- vulnerabilities critical: 0 high: 6 medium: 4 low: 0 unspecified: 1 critical: 0 high: 6 medium: 2 low: 0
- platform linux/amd64 linux/amd64
- size 59 MB 67 MB (+8.4 MB)
- packages 110 110
Base Image python:3.10-alpine
also known as:
• 3.10-alpine3.19
• 3.10.13-alpine
• 3.10.13-alpine3.19		 python:3.10-alpine
also known as:
• 3.10-alpine3.19
• 3.10.13-alpine
• 3.10.13-alpine3.19
- vulnerabilities critical: 0 high: 1 medium: 4 low: 0 unspecified: 1 critical: 0 high: 1 medium: 2 low: 0
Environment Variables (4 changes) > * `±` 4 changed > * _6 unchanged_ ```diff GPG_KEY=A035C8C19219BA821ECEA86B64E628F8D684696D LANG=C.UTF-8 PATH=/usr/local/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin -PYTHON_GET_PIP_SHA256=7cfd4bdc4d475ea971f1c0710a5953bcc704d171f83c797b9529d9974502fcc6 +PYTHON_GET_PIP_SHA256=dfe9fd5c28dc98b5ac17979a953ea550cec37ae1b47a5116007395bfacff2ab9 -PYTHON_GET_PIP_URL=https://github.com/pypa/get-pip/raw/049c52c665e8c5fd1751f942316e0a5c777d304f/public/get-pip.py +PYTHON_GET_PIP_URL=https://github.com/pypa/get-pip/raw/dbf0c85f76fb6e1ab42aa672ffca6f0a675d9ee4/public/get-pip.py PYTHON_PIP_VERSION=23.0.1 PYTHON_SETUPTOOLS_VERSION=65.5.1 PYTHON_VERSION=3.10.13 -RELEASE_ID=de3ef7709d4a18edecd940fd654063e7e3e5b6a6 +RELEASE_ID=a91350c79221d5f3b300c4cbd9f8590546937ba1 -VERSION=edge +VERSION=pr-529 ```
Labels (3 changes) > * `±` 3 changed > * _5 unchanged_ ```diff -org.opencontainers.image.created=2024-01-25T08:16:19.691Z +org.opencontainers.image.created=2024-03-01T14:53:41.943Z org.opencontainers.image.description= org.opencontainers.image.licenses=GPL-3.0 -org.opencontainers.image.revision=de3ef7709d4a18edecd940fd654063e7e3e5b6a6 +org.opencontainers.image.revision=a91350c79221d5f3b300c4cbd9f8590546937ba1 org.opencontainers.image.source=https://github.com/paulscherrerinstitute/alphafold-on-fire org.opencontainers.image.title=alphafold-on-fire org.opencontainers.image.url=https://github.com/paulscherrerinstitute/alphafold-on-fire -org.opencontainers.image.version=edge +org.opencontainers.image.version=pr-529 ```
Packages and Vulnerabilities (7 package changes and 2 vulnerability changes) > * :infinity: 7 packages changed > * 103 packages unchanged > * :heavy_check_mark: 2 vulnerabilities removed
Changes for packages of type apk (6 changes)
Package Version
psisharedsharedchncr001.azurecr.io/alphafold:edge		 Version
psisharedsharedchncr001.azurecr.io/alphafold:pr-529
:infinity: .python-rundeps 20231209.013648 20240127.073042
:infinity: libcrypto3 3.1.4-r2 3.1.4-r5
:infinity: libssl3 3.1.4-r2 3.1.4-r5
:infinity: openssl 3.1.4-r2 3.1.4-r5
critical: 0 high: 0 medium: 2 low: 0 unspecified: 1
Removed vulnerabilities (3):
  • medium : CVE--2023--6129
  • medium : CVE--2024--0727
  • unspecified : CVE--2023--6237
:infinity: tzdata 2023c-r1 2023d-r0
:infinity: zlib 1.3-r2 1.3.1-r0
Changes for packages of type pypi (1 changes)
Package Version
psisharedsharedchncr001.azurecr.io/alphafold:edge		 Version
psisharedsharedchncr001.azurecr.io/alphafold:pr-529
:infinity: pip 23.3.2 24.0
dependabot[bot] commented 8 months ago

Superseded by #532.