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This is a pre-release. It can contain bugs and significant changes which are not yet finalized. Changes may appear without notice. We recommend to try the pre-releases to learn about upcoming features. For important projects, use stable releases. |
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<summary><h3>Commit history</h3> (click to expand)</summary>
- [[`ed65bf1`](https://github.com/nextstrain/nextclade/commit/ed65bf16e73f49a5f8f5a3f5b49b2a12e06bd58d)] feat: add sample data for hAdv-A
- [[`6cf49c0`](https://github.com/nextstrain/nextclade/commit/6cf49c073f7ddbd57c4bc0924a35542f176f3f30)] Merge remote-tracking branch 'origin/master' into feat/hadv-a
- [[`fe81e75`](https://github.com/nextstrain/nextclade/commit/fe81e7517c4a546a4e6241f645f5bd4d955490d9)] Merge remote-tracking branch 'origin/master' into feat/hadv-a
- [[`42bfe20`](https://github.com/nextstrain/nextclade/commit/42bfe2017e3d2263916f7fc16d6ddf736144c882)] Merge remote-tracking branch 'origin/master' into feat/hadv-a
- [[`6435118`](https://github.com/nextstrain/nextclade/commit/6435118e25266ce64f379bc28c000bc75c2a4a8a)] chore: release web v2.2.0
- [[`a9c6c30`](https://github.com/nextstrain/nextclade/commit/a9c6c309e5cab59f893ec6574d9084258f6c72c5)] feat: sort mutations, deletions and insertions
This adds sorting of mutations, deletions and insertions right after they are extracted. This should ensure that they are sorted in the the output files, which improves readability.
- [[`c52e5c2`](https://github.com/nextstrain/nextclade/commit/c52e5c240cad3576fd2190b0d786c00d353c29d3)] refactor: fix comment
- [[`3bb8cfd`](https://github.com/nextstrain/nextclade/commit/3bb8cfdb0785279207e87e15ed81c5af9956ff7c)] Merge pull request #886 from nextstrain/feat/sort-muts
feat: sort mutations, deletions and insertions
- [[`f79230e`](https://github.com/nextstrain/nextclade/commit/f79230e1cebca161832d1a4e2f7bd88866422dd4)] Merge branch 'feat/hadv-a'
- [[`6df91b5`](https://github.com/nextstrain/nextclade/commit/6df91b5647ae25b51e4dbe9a5bbd2eb23eb9c749)] chore: speedup dev and test binaries
This enables optimizations even in dev and test mode, to some of the third-party packages that are known to be slow. This should hopefully make dev experience a bit better.
- [[`3806b82`](https://github.com/nextstrain/nextclade/commit/3806b8262d5f331fba00eb2f942782fbb90850ce)] Merge pull request #889 from nextstrain/chore/speedup-dev-and-test
- [[`34c788d`](https://github.com/nextstrain/nextclade/commit/34c788d69aff0e0b30a7b164bebdf81001c9bcea)] docs: cleanup changelog
- [[`e356f13`](https://github.com/nextstrain/nextclade/commit/e356f135a4800ffe95fab6146aca4feb76568d50)] docs: add min match rate to changelog
- [[`f45ac24`](https://github.com/nextstrain/nextclade/commit/f45ac2485ded4a21fd9bb3be625754e818815fe3)] fix(cli): typo
- [[`f283a5f`](https://github.com/nextstrain/nextclade/commit/f283a5f1925df338814d4066a95ab67a28316a78)] Merge pull request #890 from nextstrain/fix/typo
- [[`7ec6b81`](https://github.com/nextstrain/nextclade/commit/7ec6b812a886cd623323ba6fa3e51f2b9ff752ea)] feat(cli): make output compression faster
This:
- [x] reduces default output file compression levels for all formats to 2, which roughly corresponds to "fast" or "low" preset. This should ensure that outputs are not limited by compression speed in most cases.
- [x] allows to set compression levels per format with environment variables:
- `GZ_COMPRESSION`
- `BZ2_COMPRESSION`
- `XZ_COMPRESSION`
- `ZST_COMPRESSION`
- [[`12c36ca`](https://github.com/nextstrain/nextclade/commit/12c36cafaa3f11bc08eaaf23d43e33c64ea01400)] Merge pull request #892 from nextstrain/feat/faster-compression
- [[`e0c7f17`](https://github.com/nextstrain/nextclade/commit/e0c7f179d4f494ad10eb4fbcd7ef3e624dd5d3e1)] chore: release cli 2.0.0-beta.8
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