v14

From the changelog:

• 23 October 2024: Update workflow to use Nextclade v3. This includes the removal of unused mutation summary script and rules that expected Nextclade v2 outputs. Dropping the mutation summary rules removed the need for the full alignment rule align to produce the insertions and translations outputs, so they have been removed. The build_align rule no longer produces a separate insertions.tsv since insertions are now included in the nextclade_qc.tsv. PR 1160

• 2 October 2024: Include a new parameter for clade_recency under colors. This parameter is used to define which clades should receive a color from the standard rainbow palette. A value of 6M will cause clades with strains in the tree sampled within the last 6 months to be colored and earlier strains to not receive a color (and be colored in a palette of grays by Auspice). This clade_recency parameter is used in builds.yaml in nextstrain_profiles to color clades according for the 1m, 2m, 6m and all-time timepoints. If clade_recency is not supplied then all clades will be colored. PR 1132

• 30 September 2024: Use population-based weighted sampling for nextstrain_profiles. This requires a minimum Augur version of 25.3.0. PRs 1106, 1150, 1151

• 31 January 2024: Remove RBD-level related rules and files since this feature has been broken since May 2023 and is no longer relevant. PR 1097

• 30 January 2024: Fix RBD-level coloring by updating clade label and clade parsing. PR 1094

• 14 Dec 2023: Use nextclade2 binary that makes the version explicit PR 1089

• 17 June 2023: Update subsampling strategy for nextstrain_profiles to better equilibrate per-capita sampling rates across geographic regions. Primarily this update breaks out China and India as separate subsampling targets because of their large population sizes. It also fine tunes the per-region sampling targets. After this update, URL structure (ie https://nextstrain.org/ncov/gisaid/global/6m) is unchanged. PR 1074