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kbase / collections

Data collections code including a service and loaders
MIT License
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Bump sourmash from 4.8.7 to 4.8.10 #741

Closed dependabot[bot] closed 1 month ago

dependabot[bot] commented 3 months ago

Bumps sourmash from 4.8.7 to 4.8.10.

Release notes

Sourced from sourmash's releases.

v4.8.10

This release is accompanied by the publication of a JOSS paper: “sourmash v4: A multitool to quickly search, compare, and analyze genomic and metagenomic data sets”, our new citation handle!

Minor new features:

  • check select parameters; enforce types when building manifests (#3212)
  • patch-fix sig extract to no longer create empty zips (#3214)

Bug fixes:

  • adjust how ANI is calculated in the revindex code. (#3218)

Cleanup and documentation updates:

  • final updates for 2024 JOSS publication (#3225)
  • Improve JOSS paper affiliations (#3224)
  • fix DOI for Rahman Hera paper in JOSS pub. (#3221)
  • upd citations, minor text (#3220)

Developer updates:

  • bump sourmash core version to 0.14.1 (#3219)
  • bump version to 4.8.10-dev (#3211)

Dependabot updates:

  • Bump proptest from 1.4.0 to 1.5.0 (#3222)
  • [pre-commit.ci] pre-commit autoupdate (#3223)
  • [pre-commit.ci] pre-commit autoupdate (#3003)
  • Bump histogram from 0.10.2 to 0.11.0 (#3216)
  • Bump pypa/cibuildwheel from 2.19.0 to 2.19.1 (#3217)
  • Bump histogram from 0.10.1 to 0.10.2 (#3207)
  • Bump statrs from 0.16.1 to 0.17.1 (#3205)
  • Bump roaring from 0.10.4 to 0.10.5 (#3206)
  • Bump primal-check from 0.3.3 to 0.3.4 (#3208)
  • Bump niffler from 2.5.0 to 2.6.0 (#3204)
  • Bump pypa/cibuildwheel from 2.18.1 to 2.19.0 (#3202)

v4.8.9

Minor new features:

  • add --set-name to sig intersect and sig subtract (#3162)
  • upgrade sig overlap and sig subtract to load more than JSON signatures (#3153)
  • force continue past tax genome classification errors (#3100)

Bug fixes:

  • fix remaining_bp output from sourmash gather (#3195)
  • fix RocksDB-based gather & other rust-based infelicities revealed by plugins (#3193, #3197)
  • use correct denominator in f_unique_to_query (#3138)

... (truncated)

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Tianhao-Gu commented 1 month ago

@dependabot rebase

dependabot[bot] commented 1 month ago

Looks like sourmash is up-to-date now, so this is no longer needed.