Conversation
…alues (#1360) Pathoplexus restructured mpox lineages: the LAPIS field is now `outbreakLineage` (old `lineage` field no longer has a lineage index, causing the lineage definition fetch to fail). Lineage values are now prefixed with the outbreak identifier (e.g. `sh2017/F.1`). - Labels updated to "Outbreak & Lineage" throughout - Predefined variants and compare-side-by-side defaults updated to use `sh2017/F.*` values - E2E test helper updated with new field placeholder and lineage value Co-authored-by: Felix Hennig <felix-agent@felixhennig.com> Co-authored-by: Claude Sonnet 4.6 <noreply@anthropic.com>
|
The latest updates on your projects. Learn more about Vercel for GitHub.
|
…ders (#1358) resolves #1255 ### Summary The variant-selection e2e tests (compareSideBySide, singleVariant) were flaky on Firefox/WebKit. The worst failure mode: fillLineageField typed into the lineage autocomplete then clicked the matching dropdown option, but the Downshift menu can be closed again by a concurrent re-render (each filter field fetches its options from LAPIS independently). The option then never appears and the click waits out the full 60s test timeout -- a larger timeout cannot help a closed menu. Re-open the menu and retry the option click together so a transient close cannot wedge the test. Also keep two mitigations for the slower "still loading" failure mode: bump @playwright/test 1.60->1.61 and set a global 15s expect timeout. Co-authored-by: Felix Hennig <felix-agent@felixhennig.com> Co-authored-by: Claude Sonnet 4.6 <noreply@anthropic.com>
…dashboards (#1359) ### Summary Extract resistance mutation collection configs and helpers from the wasap subtree into a shared util file (resistanceMutations.ts). Add `byEnv` as a pure selector to dbIdSpace.ts. Wire COVID, RSV-A, and RSV-B constants to factory functions that build collection configs; have the generic Astro page components fetch annotations server-side and pass them down through the React layout tree. ### Screenshot <img width="1615" height="1277" alt="image" src="https://github.com/user-attachments/assets/2ac51710-8848-45d5-9035-6f4f14e06126" /> ## PR Checklist - [ ] All necessary documentation has been adapted. - [ ] The implemented feature is covered by an appropriate test. --------- Co-authored-by: Felix Hennig <felix-agent@felixhennig.com> Co-authored-by: Claude Sonnet 4.6 <noreply@anthropic.com>
…ageData (#1362) #1349 ### Summary Introduce WasapValidationError for config/state validation failures (mode not enabled, no collection selected, etc.) and tell React Query not to retry them, so the UI doesn't spin for ~7s on states that are immediately known to be invalid. ## PR Checklist - ~~All necessary documentation has been adapted.~~ - [x] The implemented feature is covered by an appropriate test. --------- Co-authored-by: Felix Hennig <felix-agent@felixhennig.com> Co-authored-by: Claude Sonnet 4.6 <noreply@anthropic.com>
…ant types (#1363) resolves #1357 ### Summary Explains what 'Nucleotide substitutions' vs 'New nucleotide substitutions' means for each lineage collection. The parent lineage name is included in the description of the 'New' variants. These descriptions surface in the collection detail page and as tooltips in the queries-over-time table. ### Screenshot <img width="1270" height="670" alt="image" src="https://github.com/user-attachments/assets/c8cdff0d-8683-4f34-b72f-5274b05a9980" /> <img width="1538" height="513" alt="image" src="https://github.com/user-attachments/assets/30a3b7dc-08c4-4dd5-bd90-699d6002038d" /> ## PR Checklist - ~~All necessary documentation has been adapted.~~ - ~~The implemented feature is covered by an appropriate test.~~ --------- Co-authored-by: Felix Hennig <felix-agent@felixhennig.com> Co-authored-by: Claude Sonnet 4.6 <noreply@anthropic.com>
… 1.19.0 (#1371) chore(website): bump @genspectrum/dashboard-components from 1.18.0 to 1.19.0 🤖 Generated with [Claude Code](https://claude.com/claude-code) https://claude.ai/code/session_014VYznUoFqp495aC7m4mqDt Co-authored-by: Claude Sonnet 5 <noreply@anthropic.com>
…tes' (#1374) ## Summary - An unrestricted `samplingDate` at 'day' granularity could exceed the mutations-over-time component's column limit ("Too many dates"). A bare WASAP URL now defaults to "Most recent 30 days" instead of leaving the range unrestricted. - That default, and any other preset (e.g. picked from the date filter dropdown), is resolved against the dataset's actual latest sample date rather than today's wall-clock date, so it stays accurate even when data lags behind. Resolution only costs a network round trip when a preset label needs it — explicit custom date ranges still resolve synchronously with no extra request. - The date filter dropdown gained an explicit "All times" option for users who want the old unrestricted behavior deliberately. - Presets round-trip through the URL as their label (e.g. `samplingDate=Most+recent+30+days`) instead of being pinned to literal dates, so reloading or sharing a link re-resolves against current data. Explicit custom ranges still serialize as literal dates. ## Test plan - [x] `npx tsc --noEmit` passes - [x] `npx eslint` clean on changed files - [x] Unit + browser tests pass (`WasapPageStateHandler.spec.ts`, `useResolvedSamplingDate.browser.spec.tsx`, `recentDaysDateRangeOptions.spec.ts`, `DynamicDateFilter.browser.spec.tsx`) - [ ] Manual check in a running dev server: load a WASAP page with a bare URL and confirm it resolves to "Most recent 30 days" against real data, then try picking other presets and "All times" from the dropdown 🤖 Generated with [Claude Code](https://claude.com/claude-code) https://claude.ai/code/session_015sY3zvsCSa8bvRzVAoVa5o --------- Co-authored-by: Claude Sonnet 5 <noreply@anthropic.com> Co-authored-by: Felix Hennig <felix-agent@felixhennig.com>
This file contains hidden or bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
1 participant
Add this suggestion to a batch that can be applied as a single commit.This suggestion is invalid because no changes were made to the code.Suggestions cannot be applied while the pull request is closed.Suggestions cannot be applied while viewing a subset of changes.Only one suggestion per line can be applied in a batch.Add this suggestion to a batch that can be applied as a single commit.Applying suggestions on deleted lines is not supported.You must change the existing code in this line in order to create a valid suggestion.Outdated suggestions cannot be applied.This suggestion has been applied or marked resolved.Suggestions cannot be applied from pending reviews.Suggestions cannot be applied on multi-line comments.Suggestions cannot be applied while the pull request is queued to merge.Suggestion cannot be applied right now. Please check back later.
This pull request updates the
prodbranch with the latest changes from themainbranch.Make sure to merge this creating a merge commit.