Build(deps): Bump needletail from 0.6.1 to 0.6.3 #3553
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Codecov ReportAll modified and coverable lines are covered by tests ✅
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## latest #3553 +/- ##
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- Coverage 87.99% 87.98% -0.02%
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Files 136 136
Lines 22230 22230
Branches 2225 2225
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- Hits 19561 19558 -3
- Misses 2356 2359 +3
Partials 313 313
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Bumps [needletail](https://github.com/onecodex/needletail) from 0.6.1 to 0.6.3. - [Release notes](https://github.com/onecodex/needletail/releases) - [Changelog](https://github.com/onecodex/needletail/blob/master/CHANGELOG.md) - [Commits](onecodex/needletail@v0.6.1...v0.6.3) --- updated-dependencies: - dependency-name: needletail dependency-type: direct:production update-type: version-update:semver-patch ... Signed-off-by: dependabot[bot] <support@github.com>
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## [0.20.0] - 2025-05-06 MSRV: 1.74 Changes/additions: * fully support skip-mers at the Python level; provide documentation (#3627) * remove support for python 3.10 (#3606) * fix linear gather in Rust (#3605) * impl full mem-based `RevIndex` in Rust, and add Python support for mem- and disk-based `RevIndex` (#3545) * Minhash deserialize hashfunction errorhandling (#3560) * fix beta clippy errors (#3548) Updates: * Bump rand from 0.9.0 to 0.9.1 (#3620) * Bump roaring from 0.10.10 to 0.10.12 (#3608) * Bump log from 0.4.26 to 0.4.27 (#3587) * Bump tempfile from 3.19.0 to 3.19.1 (#3588) * Bump tempfile from 3.18.0 to 3.19.0 (#3582) * Bump serde from 1.0.218 to 1.0.219 (#3576) * Bump tempfile from 3.17.1 to 3.18.0 (#3575) * Bump histogram from 0.11.2 to 0.11.3 (#3574) * Bump serde_json from 1.0.139 to 1.0.140 (#3566) * Bump getset from 0.1.4 to 0.1.5 (#3567) * Bump needletail from 0.6.1 to 0.6.3 (#3553) * Bump serde_json from 1.0.138 to 1.0.139 (#3552) * Bump serde from 1.0.217 to 1.0.218 (#3550) * Bump log from 0.4.25 to 0.4.26 (#3549) * Bump tempfile from 3.16.0 to 3.17.1 (#3539)
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# sourmash v4.9.0 release notes This release adds two significant feature sets to sourmash, without introducing any breaking changes. First, sourmash now fully supports fast, low-memory disk-based inverted indexes based on RocksDB. This functionality has been part of [the branchwater plugin](https://github.com/sourmash-bio/sourmash_plugin_branchwater) for a while, but it is now accessible via the sourmash command line and Python API. Second, we have added skip-mer sketching to sourmash, joining DNA, protein, dayhoff, and hp encodings. Skip-mers allow more mismatches than DNA k-mers and can be useful when comparing fast-evolving sequences such as virus and phage genomes. Documentation for the RocksDB indexes and skip-mer encodings is available in the [command-line docs](https://sourmash.readthedocs.io/en/latest/command-line.html). Major new features: * Fully support fast, low-memory RocksDB indexes in Python (#3545) * Fully support skip-mers at the Python level; provide documentation (#3627) * Remove support for python 3.10 (#3606) Cleanup and documentation updates: * add default to `add_scaled_arg` in Python CLI utils (#3609) * use `match/case` in `sourmash index` implementation (#3604) * use single quotes inside sqlite statements (#3556) Developer updates: * implement manifest retrieval from Rust via FFI for `RevIndex` (#3630) * make the RocksDB handle directly accessible to external code (#3468) * fix linear gather in Rust (#3605) * fix beta clippy errors (#3548) * fix deprecations (#3613) * update Makefile with 'offline', 'wheel' (#3579) * update ubuntu image version for CI (#3623) * Minhash deserialize hashfunction errorhandling (#3560) Automated updates: * Bump DeterminateSystems/nix-installer-action from 16 to 17 (#3626) * Bump getset from 0.1.4 to 0.1.5 (#3567) * Bump histogram from 0.11.2 to 0.11.3 (#3574) * Bump log from 0.4.25 to 0.4.26 (#3549) * Bump log from 0.4.26 to 0.4.27 (#3587) * Bump needletail from 0.6.1 to 0.6.3 (#3553) * Bump prefix-dev/setup-pixi from 0.8.1 to 0.8.2 (#3538) * Bump prefix-dev/setup-pixi from 0.8.2 to 0.8.3 (#3551) * Bump prefix-dev/setup-pixi from 0.8.3 to 0.8.4 (#3602) * Bump prefix-dev/setup-pixi from 0.8.4 to 0.8.7 (#3616) * Bump prefix-dev/setup-pixi from 0.8.7 to 0.8.8 (#3621) * Bump pypa/cibuildwheel from 2.22.0 to 2.23.0 (#3564) * Bump pypa/cibuildwheel from 2.23.0 to 2.23.1 (#3581) * Bump pypa/cibuildwheel from 2.23.1 to 2.23.2 (#3603) * Bump pypa/cibuildwheel from 2.23.2 to 2.23.3 (#3625) * Bump rand from 0.9.0 to 0.9.1 (#3620) * Bump roaring from 0.10.10 to 0.10.12 (#3608) * Bump serde from 1.0.217 to 1.0.218 (#3550) * Bump serde from 1.0.218 to 1.0.219 (#3576) * Bump serde_json from 1.0.138 to 1.0.139 (#3552) * Bump serde_json from 1.0.139 to 1.0.140 (#3566) * Bump tempfile from 3.16.0 to 3.17.1 (#3539) * Bump tempfile from 3.17.1 to 3.18.0 (#3575) * Bump tempfile from 3.18.0 to 3.19.0 (#3582) * Bump tempfile from 3.19.0 to 3.19.1 (#3588) * Bump thiserror from 2.0.11 to 2.0.12 (#3565) * pre-commit autoupdate (#3547) * pre-commit autoupdate (#3563) * pre-commit autoupdate (#3573) * pre-commit autoupdate (#3580) * pre-commit autoupdate (#3586) * pre-commit autoupdate (#3607) * pre-commit autoupdate (#3615) * pre-commit autoupdate (#3619) * pre-commit autoupdate (#3624) * pre-commit autoupdate (#3633)
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Bumps needletail from 0.6.1 to 0.6.3.
Release notes
Sourced from needletail's releases.
Commits
3b916b8Bump version to v0.6.3 (#100)7b1ad2dBetter release action (#99)e2919fdRelease v0.6.20010f64Make FileParsingTestCase inherit from StrParsingTestCasecdbb275Add pycache to .gitignore816f86aUse assertIsInstance in test_pathlib_path_inputf88cb3bFix linting issued89e9a1Update Python tests6e72d6eAdd new task to to-doad30d84Set the default of valuehe iupac parameter to FalseDependabot will resolve any conflicts with this PR as long as you don't alter it yourself. You can also trigger a rebase manually by commenting
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