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…tations (#1286) resolves cbg-ethz/WisePulse#240 ### Summary Compute and display a Jaccard index column for mutations loaded from Nextclade tree collections, using the same clinical LAPIS queries as the computed signature mode. When no clinical sequences match the lineage (e.g. no public data available), the column is silently omitted. ### Screenshot https://github.com/user-attachments/assets/3e040531-06ca-4c98-a255-53604142bd2c ### PR Checklist - Tests ✅ --------- Co-authored-by: Felix Hennig <claude@felixhennig.com> Co-authored-by: Claude Sonnet 4.6 <noreply@anthropic.com>
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resolves #1275 ## Summary - Mutations in all four variant lists (full nuc, full AA, branch nuc, branch AA) for RSV Nextclade lineage collections were emitted in dict-insertion or source-JSON order rather than numeric genome position order - Fixed by sorting in `_format_accum_nuc` (by position int), `_format_accum_aa` (by gene then position int), and at the `branch_nuc`/`branch_aa_flat` construction sites in `_extract_clades` - Added 4 new tests using a `SORT_TREE` fixture with deliberately descending-order mutations to catch regressions ## Test plan - [x] `pixi run test tests/test_rsv_nextclade_lineages.py -v` — all 50 tests pass 🤖 Generated with [Claude Code](https://claude.com/claude-code) Co-authored-by: Claude Sonnet 4.6 <noreply@anthropic.com>
…up (#1308) ### Summary Adds a new `/api/users/me` endpoint. I want to use this, so the seeder can - based on the given API key - find out its own user ID. It can then use this to fetch its own collections. ## PR Checklist - [x] All necessary documentation has been adapted. - [x] The implemented feature is covered by an appropriate test. --------- Co-authored-by: Felix Hennig <claude@felixhennig.com> Co-authored-by: Claude Sonnet 4.6 <noreply@anthropic.com>
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