Draft release notes for sourmash v4.3.0 - Githubissues

sourmash-bio / sourmash

Quickly search, compare, and analyze genomic and metagenomic data sets.

http://sourmash.readthedocs.io/en/latest/

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Draft release notes for sourmash v4.3.0 #1873

Closed ctb closed 2 years ago

ctb commented 2 years ago

Editing here: https://hackmd.io/RGNKhm63QLKElnI-l1Ye8Q?edit

git checkout latest
git pull
git log --oneline v4.2.4..latest

New features:

add sourmash sig grep (#1864)
add sourmash sig summarize (#1837, #1863)
add --include-db-pattern and --exclude-db-pattern to many commands (#1871)
update lca summarize output to output total counts (#1838)

Bug fixes:

fix sourmash prefetch to work when db scaled is larger than query scaled (#1870)
fix sourmash prefetch for multiple ksizes in database (#1866)
allow missing columns in tax CSV files (#1869)
fix containment calculation for nodegraphs (#1862)
fix tax prepare SQL code for empty/blank taxonomic ranks (#1843)

Cleanup and documentation fixes:

clean up 'describe' a little bit, add a test (#1861)
add --output-dir as alias for every --outdir (#1817)
fix doc titles in command-line.md and update description a bit (#1874)

Developer updates:

move greyhound-core into sourmash (#1238)
drop Python 3.7, default most of CI to Python 3.10 (#1839)
reorganize traits for easier wasm and native compilation (#1836)
update asv to newly released version (#1834)
pin setuptools < 60 (#1879)

ctb commented 2 years ago

in draft form - will release when wheels finish uploading.