nextstrain/nextclade: 2.3.1

Nextclade CLI 2.3.1, Nextclade Web 2.3.1

• Fix #947: In datasets where genes started right at the beginning of the reference sequence, Nextclade version 2.0.0 until 2.3.0 will crash due to underflow. This is now fixed. The only Nextclade provided dataset that was affected by this bug is Influenza Yamagate HA. That dataset had a further bug in the tree so there is now a corresponding dataset bug fix release available. (report: @mcroxen)

<details> <summary><h3>Commit history</h3> (click to expand)</summary> - [[`36e2d8f`](https://github.com/nextstrain/nextclade/commit/36e2d8fe7e553fdadc7c6b5df686d9769471ce4d)] chore: release web v2.3.0 - [[`329b5e3`](https://github.com/nextstrain/nextclade/commit/329b5e3c696cbf2f9e8f04ad0bb2ccc42607300c)] Check for auspice updates daily Uses dependabot to check for auspice updates. - [[`f07a807`](https://github.com/nextstrain/nextclade/commit/f07a80743b15f6f44b385ea206e1520fc2d963e7)] Delete Update-Auspice.yml This is not needed with the new .github/dependabot.yml. - [[`1395627`](https://github.com/nextstrain/nextclade/commit/13956274ab305bf42f5ecee84969cc78df49cb91)] Merge pull request #936 from victorlin/master - [[`f4c1aa3`](https://github.com/nextstrain/nextclade/commit/f4c1aa38bb448dd5d09f176bc60106300462cbb3)] docs: adjust cli docs to nextclade v2 - [[`781e998`](https://github.com/nextstrain/nextclade/commit/781e9984aef0e4aa390f13e757281b8e79256b6a)] Merge pull request #941 from nextstrain/docs/v2 - [[`572915b`](https://github.com/nextstrain/nextclade/commit/572915bab56f215e805544a9f95bcc1e8c4e50f4)] docs: Install nextstrain.sphinx.theme extension The new extension has sphinx_copybutton pre-installed and configured. This change enables it here. This also makes it easier to configure other extensions across multiple docs projects. - [[`23010b7`](https://github.com/nextstrain/nextclade/commit/23010b7b5dc675534cf1a492111e6f3cedc29ad3)] Bump nextstrain-sphinx-theme to >=2022.5 This is when the extension started being actively configured. - [[`4fd46af`](https://github.com/nextstrain/nextclade/commit/4fd46af22d7cf9f5fcb16ea03245c9d79dc896a3)] Merge pull request #943 from nextstrain/victorlin/docs-install-nextstrain-extension docs: Install nextstrain.sphinx.theme extension - [[`11f6fcb`](https://github.com/nextstrain/nextclade/commit/11f6fcbcdb06cd8788629150b194d4433872b5fd)] chore: add tmp data to gitignore - [[`2d8ab9d`](https://github.com/nextstrain/nextclade/commit/2d8ab9d5384f2a7eec97f3f083a41543c1e94383)] refactor: lint - [[`2f9d677`](https://github.com/nextstrain/nextclade/commit/2f9d67795eb107ed637ad6c675f7b845c61d951e)] Merge pull request #945 from nextstrain/lint - [[`316862e`](https://github.com/nextstrain/nextclade/commit/316862e888a7891e51a943544eb609fcec5f5d2f)] fix: underflow when mutation in gene close to start When the first gene is very close to the start of the sequence - [[`921a11b`](https://github.com/nextstrain/nextclade/commit/921a11bd61761b2ac9270d07993fb633993a9d88)] Merge pull request #947 from nextstrain/fix/underflow-gene-context fix: underflow when mutation in gene close to start - [[`5cc22de`](https://github.com/nextstrain/nextclade/commit/5cc22deb9da32fbe6332d58af113aee1dc7a7976)] chore: CHANGELOG for 2.3.1 - [[`e737f19`](https://github.com/nextstrain/nextclade/commit/e737f19c47b335e71bc1a5af47821bd62f5a68c7)] chore: release cli 2.3.1 </details>