chore: release main

[varfish-bot]

🤖 I have created a release beep boop

0.42.0

0.42.0 (2026-04-14)

⚠ BREAKING CHANGES

• add experimental option to predict compound effect of multiple variants on the same transcript, allow building txdb from gff3+fasta (#972)
• allow arbitrary assemblies; this impacts the transcript database protobuf definitions, though we tried keeping them backwards compatible. This also impacts the server REST api.
• refactor annotate seqvars cli (e.g., --input and --output and introduce --output-format etc, allow stdin/stdout)

Features

• add experimental option to predict compound effect of multiple variants on the same transcript, allow building txdb from gff3+fasta (#972) (e377c4e)
• add options to include reference/alternative cDNA and protein sequences in output (#966) (ec87cb0)

0.42.0

0.42.0 (2026-04-14)

⚠ BREAKING CHANGES

• add experimental option to predict compound effect of multiple variants on the same transcript, allow building txdb from gff3+fasta (#972)
• allow arbitrary assemblies; this impacts the transcript database protobuf definitions, though we tried keeping them backwards compatible. This also impacts the server REST api.
• refactor annotate seqvars cli (e.g., --input and --output and introduce --output-format etc, allow stdin/stdout)

Features

• add experimental option to predict compound effect of multiple variants on the same transcript, allow building txdb from gff3+fasta (#972) (e377c4e)
• add options to include reference/alternative cDNA and protein sequences in output (#966) (ec87cb0)

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This PR was generated with Release Please. See documentation.

Summary by CodeRabbit

• New Features

  • Experimental option to predict compound effects of multiple variants on the same transcript
  • Support for building transcript database from gff3+fasta files
  • Options to include reference and alternative cDNA and protein sequences in output

• Breaking Changes

  • Experimental features introduced for compound variant effect prediction and transcript database building

[coderabbitai]

📝 Walkthrough

Walkthrough

Bump versions from 0.41.2 → 0.42.0 for mehari and mehari-python; update .release-please-manifest.json; add 0.42.0 changelog entries documenting a new experimental compound-effect/txdb option and new options to include ref/alt cDNA and protein sequences in outputs.

Changes

Cohort / File(s)	Summary
Release Manifest /.release-please-manifest.json	Updated manifest pins for mehari and mehari-python from 0.41.2 → 0.42.0.
mehari-python package mehari-python/Cargo.toml, mehari-python/pyproject.toml, mehari-python/CHANGELOG.md	Package version bumped to 0.42.0; added 0.42.0 changelog entry documenting experimental compound-effect/txdb option and options to include reference/alternative cDNA and protein sequences.
mehari package mehari/Cargo.toml, mehari/CHANGELOG.md	Package version bumped to 0.42.0; added 0.42.0 changelog entry referencing the experimental compound-effect/txdb feature and new ref/alt sequence output options.

Estimated code review effort

🎯 1 (Trivial) | ⏱️ ~3 minutes

Possibly related PRs

• chore: release main #963: Related release/version-bump and changelog updates across manifest and package metadata.
• chore: release main #961: Prior release bump touching the same manifest/package version fields and changelog entries.

Poem

🐰 Hop, hop — new numbers in view,
From 0.41.2 to 0.42.0 they flew,
Compound effects and txdb now peek through,
cDNA and protein lines added too,
I nibble a carrot and cheer: hooray for the new!

🚥 Pre-merge checks | ✅ 2 | ❌ 1

❌ Failed checks (1 inconclusive)

Check name	Status	Explanation	Resolution
Title check	❓ Inconclusive	The title "chore: release main" is a generic release commit message that describes the type of change (chore/release) but does not convey the specific nature of the changeset, which is a version bump to 0.42.0 with breaking changes and new features.	Consider using a more descriptive title that indicates the version bump (e.g., "chore: release version 0.42.0") to help developers quickly understand the scope of the release.

✅ Passed checks (2 passed)

Check name	Status	Explanation
Docstring Coverage	✅ Passed	No functions found in the changed files to evaluate docstring coverage. Skipping docstring coverage check.
Description Check	✅ Passed	Check skipped - CodeRabbit’s high-level summary is enabled.

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✨ Finishing Touches

📝 Generate docstrings

• Create stacked PR
• Commit on current branch

🧪 Generate unit tests (beta)

• Create PR with unit tests
• Commit unit tests in branch release-please--branches--main

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[varfish-bot]

🤖 Created releases:

• v0.42.0

🌻