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paulscherrerinstitute / alphafold-on-fire

GNU General Public License v3.0
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Bump ruff from 0.1.14 to 0.2.2 in /backend #521

Closed dependabot[bot] closed 8 months ago

dependabot[bot] commented 9 months ago

Bumps ruff from 0.1.14 to 0.2.2.

Release notes

Sourced from ruff's releases.

v0.2.2

Highlights include:

  • Initial support formatting f-strings (in --preview).
  • Support for overriding arbitrary configuration options via the CLI through an expanded --config argument (e.g., --config "lint.isort.combine-as-imports=false").
  • Significant performance improvements in Ruff's lexer, parser, and lint rules.

Changes

Preview features

  • Implement minimal f-string formatting (#9642)
  • [pycodestyle] Add blank line(s) rules (E301, E302, E303, E304, E305, E306) (#9266)
  • [refurb] Implement readlines_in_for (FURB129) (#9880)

Rule changes

  • [ruff] Ensure closing parentheses for multiline sequences are always on their own line (RUF022, RUF023) (#9793)
  • [numpy] Add missing deprecation violations (NPY002) (#9862)
  • [flake8-bandit] Detect mark_safe usages in decorators (#9887)
  • [ruff] Expand asyncio-dangling-task (RUF006) to include new_event_loop (#9976)
  • [flake8-pyi] Ignore 'unused' private type dicts in class scopes (#9952)

Formatter

  • Docstring formatting: Preserve tab indentation when using indent-style=tabs (#9915)
  • Disable top-level docstring formatting for notebooks (#9957)
  • Stabilize quote-style's preserve mode (#9922)

CLI

  • Allow arbitrary configuration options to be overridden via the CLI (#9599)

Bug fixes

  • Make show-settings filters directory-agnostic (#9866)
  • Respect duplicates when rewriting type aliases (#9905)
  • Respect tuple assignments in typing analyzer (#9969)
  • Use atomic write when persisting cache (#9981)
  • Use non-parenthesized range for DebugText (#9953)
  • [flake8-simplify] Avoid false positive with async for loops (SIM113) (#9996)
  • [flake8-trio] Respect async with in timeout-without-await (#9859)
  • [perflint] Catch a wider range of mutations in PERF101 (#9955)
  • [pycodestyle] Fix E30X panics on blank lines with trailing white spaces (#9907)
  • [pydocstyle] Allow using parameters as a subsection header (D405) (#9894)
  • [pydocstyle] Fix blank-line docstring rules for module-level docstrings (#9878)
  • [pylint] Accept 0.0 and 1.0 as common magic values (PLR2004) (#9964)
  • [pylint] Avoid suggesting set rewrites for non-hashable types (#9956)
  • [ruff] Avoid false negatives with string literals inside of method calls (RUF027) (#9865)

... (truncated)

Changelog

Sourced from ruff's changelog.

0.2.2

Highlights include:

  • Initial support formatting f-strings (in --preview).
  • Support for overriding arbitrary configuration options via the CLI through an expanded --config argument (e.g., --config "lint.isort.combine-as-imports=false").
  • Significant performance improvements in Ruff's lexer, parser, and lint rules.

Preview features

  • Implement minimal f-string formatting (#9642)
  • [pycodestyle] Add blank line(s) rules (E301, E302, E303, E304, E305, E306) (#9266)
  • [refurb] Implement readlines_in_for (FURB129) (#9880)

Rule changes

  • [ruff] Ensure closing parentheses for multiline sequences are always on their own line (RUF022, RUF023) (#9793)
  • [numpy] Add missing deprecation violations (NPY002) (#9862)
  • [flake8-bandit] Detect mark_safe usages in decorators (#9887)
  • [ruff] Expand asyncio-dangling-task (RUF006) to include new_event_loop (#9976)
  • [flake8-pyi] Ignore 'unused' private type dicts in class scopes (#9952)

Formatter

  • Docstring formatting: Preserve tab indentation when using indent-style=tabs (#9915)
  • Disable top-level docstring formatting for notebooks (#9957)
  • Stabilize quote-style's preserve mode (#9922)

CLI

  • Allow arbitrary configuration options to be overridden via the CLI (#9599)

Bug fixes

  • Make show-settings filters directory-agnostic (#9866)
  • Respect duplicates when rewriting type aliases (#9905)
  • Respect tuple assignments in typing analyzer (#9969)
  • Use atomic write when persisting cache (#9981)
  • Use non-parenthesized range for DebugText (#9953)
  • [flake8-simplify] Avoid false positive with async for loops (SIM113) (#9996)
  • [flake8-trio] Respect async with in timeout-without-await (#9859)
  • [perflint] Catch a wider range of mutations in PERF101 (#9955)
  • [pycodestyle] Fix E30X panics on blank lines with trailing white spaces (#9907)
  • [pydocstyle] Allow using parameters as a subsection header (D405) (#9894)
  • [pydocstyle] Fix blank-line docstring rules for module-level docstrings (#9878)
  • [pylint] Accept 0.0 and 1.0 as common magic values (PLR2004) (#9964)
  • [pylint] Avoid suggesting set rewrites for non-hashable types (#9956)
  • [ruff] Avoid false negatives with string literals inside of method calls (RUF027) (#9865)
  • [ruff] Fix panic on with f-string detection (RUF027) (#9990)

... (truncated)

Commits


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github-actions[bot] commented 9 months ago

Overview

Image reference psisharedsharedchncr001.azurecr.io/alphafold:edge psisharedsharedchncr001.azurecr.io/alphafold:pr-521
- digest 35cc0232bf90 ca79807189ce
- provenance https://github.com/paulscherrerinstitute/alphafold-on-fire/commit/de3ef7709d4a18edecd940fd654063e7e3e5b6a6 https://github.com/paulscherrerinstitute/alphafold-on-fire/commit/34a19aa7efc8d480acfc9c8f50b8d7b85945d761
- vulnerabilities critical: 0 high: 4 medium: 5 low: 0 unspecified: 1 critical: 0 high: 4 medium: 3 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=34a19aa7efc8d480acfc9c8f50b8d7b85945d761 -VERSION=edge +VERSION=pr-521 ```
Labels (3 changes) > * `±` 3 changed > * _5 unchanged_ ```diff -org.opencontainers.image.created=2024-01-25T08:16:19.691Z +org.opencontainers.image.created=2024-02-19T14:46:26.678Z org.opencontainers.image.description= org.opencontainers.image.licenses=GPL-3.0 -org.opencontainers.image.revision=de3ef7709d4a18edecd940fd654063e7e3e5b6a6 +org.opencontainers.image.revision=34a19aa7efc8d480acfc9c8f50b8d7b85945d761 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-521 ```
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-521
: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-521
:infinity: pip 23.3.2 24.0
codecov[bot] commented 9 months ago

Codecov Report

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

Comparison is base (de3ef77) 100.00% compared to head (34a19aa) 100.00%.

Additional details and impacted files ```diff @@ Coverage Diff @@ ## main #521 +/- ## ========================================= 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/521/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/521/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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:loudspeaker: Have feedback on the report? Share it here.

dependabot[bot] commented 8 months ago

Superseded by #529.