Version nextalign binary for transition

[victorlin]

Description of proposed changes

Parallels "Version nextclade binary for transition" (8cf76ae).

Related issue(s)

• Follow-up to Version nextclade binary for transition, i.e. nextclade -> nextclade2 #1089
• Use Nextclade v3 docker-base#204 (comment)

Release checklist

If this pull request introduces backward incompatible changes, complete the following steps for a new release of the workflow:

• Determine the version number for the new release by incrementing the most recent release (e.g., "v2" from "v1").
• Update docs/src/reference/change_log.md in this pull request to document these changes and the new version number.
• After merging, create a new GitHub release with the new version number as the tag and release title.

If this pull request introduces new features, complete the following steps:

• Update docs/src/reference/change_log.md in this pull request to document these changes by the date they were added.

[victorlin]

Nevermind, this isn't necessary - runtimes will keep nextalign around for backwards compatibility. nextalign is unambiguously v2 as latest, unlike nextclade.