Bump ruff from 0.1.14 to 0.3.1 in /backend

[dependabot[bot]]

Bumps ruff from 0.1.14 to 0.3.1.

Release notes

Sourced from ruff's releases.

v0.3.1

Changes

Preview features

• [pycodestyle] Fix E301 not triggering on decorated methods. (#10117)
• [pycodestyle] Respect isort settings in blank line rules (E3*) (#10096)
• [pycodestyle] Make blank lines in typing stub files optional (E3*) (#10098)
• [pylint] Implement singledispatch-method (E1519) (#10140)
• [pylint] Implement useless-exception-statement (W0133) (#10176)

Rule changes

• [flake8-debugger] Check for use of debugpy and ptvsd debug modules (#10177) (#10194)
• [pyupgrade] Generate diagnostic for all valid f-string conversions regardless of line length (UP032) (#10238)
• [pep8_naming] Add fixes for N804 and N805 (#10215)

CLI

• Colorize the output of ruff format --diff (#10110)
• Make --config and --isolated global flags (#10150)
• Correctly expand tildes and environment variables in paths passed to --config (#10219)

Configuration

• Accept a PEP 440 version specifier for required-version (#10216)
• Implement isort's default-section setting (#10149)

Bug fixes

• Remove trailing space from CapWords message (#10220)
• Respect external codes in file-level exemptions (#10203)
• [flake8-raise] Avoid false-positives for parens-on-raise with future.exception() (RSE102) (#10206)
• [pylint] Add fix for unary expressions in PLC2801 (#9587)
• [ruff] Fix RUF028 not allowing # fmt: skip on match cases (#10178)

Contributors

• @​AlexWaygood
• @​Glyphack
• @​GtrMo
• @​MichaReiser
• @​augustelalande
• @​charliermarsh
• @​diceroll123
• @​dspicher
• @​eerovaher
• @​greenstar1151
• @​hoel-bagard
• @​jbkkd

... (truncated)

Changelog

Sourced from ruff's changelog.

0.3.1

Preview features

• [pycodestyle] Fix E301 not triggering on decorated methods. (#10117)
• [pycodestyle] Respect isort settings in blank line rules (E3*) (#10096)
• [pycodestyle] Make blank lines in typing stub files optional (E3*) (#10098)
• [pylint] Implement singledispatch-method (E1519) (#10140)
• [pylint] Implement useless-exception-statement (W0133) (#10176)

Rule changes

• [flake8-debugger] Check for use of debugpy and ptvsd debug modules (#10177) (#10194)
• [pyupgrade] Generate diagnostic for all valid f-string conversions regardless of line length (UP032) (#10238)
• [pep8_naming] Add fixes for N804 and N805 (#10215)

CLI

• Colorize the output of ruff format --diff (#10110)
• Make --config and --isolated global flags (#10150)
• Correctly expand tildes and environment variables in paths passed to --config (#10219)

Configuration

• Accept a PEP 440 version specifier for required-version (#10216)
• Implement isort's default-section setting (#10149)

Bug fixes

• Remove trailing space from CapWords message (#10220)
• Respect external codes in file-level exemptions (#10203)
• [flake8-raise] Avoid false-positives for parens-on-raise with future.exception() (RSE102) (#10206)
• [pylint] Add fix for unary expressions in PLC2801 (#9587)
• [ruff] Fix RUF028 not allowing # fmt: skip on match cases (#10178)

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)

... (truncated)

Commits

• b9264a5 Set maturin version in release.yaml (#10257)
• ea79f61 Bump version to v0.3.1 (#10252)
• f999b1b Tweak E712 docs (#8613)
• fe6afbe Fix ruff-action documentation to consistently use args instead of `option...
• cbd927f Make rule PT012 example clearer (#10248)
• 6159a8e [pyupgrade] Generate diagnostic for all valid f-string conversions regardle...
• 8ea5b08 refactor: Use QualifiedName for Imported::call_path (#10214)
• 4c05c25 Add encoding when opening files in generate_mkdocs.py (#10244)
• af6ea2f [pycodestyle]: Make blank lines in typing stub files optional (E3*) (#10098)
• 46ab9de [pycodestyle] Respect isort settings in blank line rules (E3*) (#10096)
• Additional commits viewable in compare view

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[codecov[bot]]

Codecov Report

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

Project coverage is 100.00%. Comparing base (de3ef77) to head (92e3772).

Additional details and impacted files

```diff @@ Coverage Diff @@ ## main #532 +/- ## ========================================= 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/532/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/532/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.

:umbrella: View full report in Codecov by Sentry.
:loudspeaker: Have feedback on the report? Share it here.

[github-actions[bot]]

Overview

Image reference	psisharedsharedchncr001.azurecr.io/alphafold:edge	psisharedsharedchncr001.azurecr.io/alphafold:pr-532
- digest	35cc0232bf90	81460f118d2d
- provenance	https://github.com/paulscherrerinstitute/alphafold-on-fire/commit/de3ef7709d4a18edecd940fd654063e7e3e5b6a6	https://github.com/paulscherrerinstitute/alphafold-on-fire/commit/92e3772753f388402cb9f1c63a5a7a22e4a1bcc8
- vulnerabilities
- 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

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=92e3772753f388402cb9f1c63a5a7a22e4a1bcc8 -VERSION=edge +VERSION=pr-532 ```

Labels (3 changes)

> * `±` 3 changed > * _5 unchanged_ ```diff -org.opencontainers.image.created=2024-01-25T08:16:19.691Z +org.opencontainers.image.created=2024-03-07T14:39:55.814Z org.opencontainers.image.description= org.opencontainers.image.licenses=GPL-3.0 -org.opencontainers.image.revision=de3ef7709d4a18edecd940fd654063e7e3e5b6a6 +org.opencontainers.image.revision=92e3772753f388402cb9f1c63a5a7a22e4a1bcc8 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-532 ```

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-532
: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
		Removed vulnerabilities (3):
: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-532
:infinity:	pip	23.3.2	24.0

[dependabot[bot]]

Superseded by #534.