release notes for sourmash v4.8.4

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note to self: include link to pyo3_branchwater in the release notes :)

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maybe also ask users to identify themselves so we can talk about who uses sourmash?

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We are proud to release sourmash v4.8.4, now with even fewer bugs!

In addition to the patches and updates below, we would like to announce the availability of branchwater, a sourmash plugin that supports fast, low-memory, and multithreaded search, compare, and gather operations. branchwater v0.8.0 is now available and is between 10 and 100 times faster and lower memory than sourmash. (However, it does not support all the sourmash features; that will come with time!) Please give it a try!

Last but not least, we would like to ask people who use sourmash regularly to fill out this form so that we can include your information in some of our upcoming requests for funding support. Your use will not be made public but your support will help us continue to develop sourmash!

On to the release notes for sourmash v4.8.4!

Bug fixes:

• fix exponential time explosion in sig check (MRG: fix exponential time explosion in sig check #2762)
• fix duplicate md5 in picklist problem (MRG: fix duplicate md5 in picklist problem #2747)
• avoid compressing sig files in directory output twice (MRG: avoid compressing sig files in directory output twice #2752)

Developer updates:

• Remove BIGSI and SBT code (Remove BIGSI and SBT code from Rust layer #2732)
• bump version to 4.8.4-dev (MRG: bump version to 4.8.4-dev #2720)
• build: updates spun off mastiff PR (build: updates spun off mastiff PR #2723)
• Build: Remove deprecated system_packages from readthedocs (Build: Remove deprecated system_packages from readthedocs #2740)
• build: remove specific tooling that breaks s390x (build: remove specific tooling that breaks s390x #2725)
• Add cargo deny and bump deps now that MSRV is 1.64 (Add cargo deny and bump deps now that MSRV is 1.64 #2724)

Dependabot updates:

• Bump serde_json from 1.0.105 to 1.0.106 (Bump serde_json from 1.0.105 to 1.0.106 #2757)
• Bump actions/checkout from 2 to 4 (Bump actions/checkout from 2 to 4 #2746)
• Bump supercharge/redis-github-action from 1.6.0 to 1.7.0 (Bump supercharge/redis-github-action from 1.6.0 to 1.7.0 #2745)
• Bump cachix/install-nix-action from 22 to 23 (Bump cachix/install-nix-action from 22 to 23 #2744)
• Bump ouroboros from 0.17.2 to 0.18.0 (Bump ouroboros from 0.17.2 to 0.18.0 #2743)
• Bump chrono from 0.4.26 to 0.4.30 (Bump chrono from 0.4.26 to 0.4.30 #2755)
• Bump thiserror from 1.0.47 to 1.0.48 (Bump thiserror from 1.0.47 to 1.0.48 #2742)
• Bump thiserror from 1.0.44 to 1.0.47 (Bump thiserror from 1.0.44 to 1.0.47 #2730)
• Bump serde_json from 1.0.104 to 1.0.105 (Bump serde_json from 1.0.104 to 1.0.105 #2731)
• Bump actions/upload-artifact from 1 to 3 (Bump actions/upload-artifact from 1 to 3 #2729)

[luizirber]

nixpkgs PR: NixOS/nixpkgs#255999

[luizirber]

pyodide PR: pyodide/pyodide#4154

[luizirber]

spack PR: spack/spack#40062

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Release candidate testing:

• Command line tests pass for a release candidate
• All eight release candidate wheels are built

Releasing to PyPI:

• RC tag(s)s deleted on github
• Release tag cut
• Release notes written
• All eight release wheels built
• Release wheels uploaded to pypi
• tar.gz distribution uploaded to pypi

After release to PyPI and conda-forge/bioconda packages built:

• PyPI page updated
• Zenodo DOI successfully minted upon new github release - see search results
• pip install sourmash installs the correct version
• conda-forge sourmash-minimal-feedstock has updated sourmash-minimal to the correct version
• mamba create -n smash-release -y sourmash installs the correct version

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released!