Settings menu follow-ups from #188, https IRIs in the examples, search example and title link

[retog]

Follow-up to #188. It fixes the settings-menu problems from the review of #188 and from review on this PR, moves the SPARQL page to the https Plazi IRIs, handles https IRIs in the treatment view, and brings back two behaviours of the classic version.

Settings menu (src/components/SettingsMenu.ts)

• A failing custom URL is no longer stored. A custom URL is stored only together with switching the page to it: when its test passes, or on Use anyway. A failing URL stays a draft in the menu, with its error, also across closing and reopening. Editing the field drops the draft, and choosing a known endpoint drops it too.
• The custom URL has a Use button. Choosing Custom URL… only shows the field, prefilled with a stored custom URL, and does nothing else. Use (or Enter) uses the URL in the field, also when it was not edited. That is the way back from a link's server to the stored custom endpoint.
• The menu follows the gear. On resize and scroll, at most once per frame, the menu is placed again under the gear, and it closes only when the gear leaves the view. So it stays open when the on-screen keyboard opens or closes on a phone, and it no longer ends up above the viewport.
• No false link note with blocked site data. After storing, the endpoint is read back, so the menu no longer claims the page uses a server from its link when storage is unavailable.

Search page

• Example name back. The search field shows Sadayoshia acamar as an example again, and searching with an empty field searches for it, as in the classic version. This was lost when the Vue app was replaced.
• Title links to / again. While this version is served under next/, the SynoSpecies title leads back to the classic version. Once this becomes the main version, it is simply the search page. The Search tab still opens this version's search.

https IRIs

• SPARQL page (src/advanced.ts). The treatment: and publication: prefixes, the commented-out taxon-concept and taxon-name prefixes, the DESCRIBE example and the three Tyrannosaurus rex IRIs now use https://. gg2rdf generates these namespaces with https (Mint Plazi resource IRIs with https:// as the canonical scheme plazi/gg2rdf#34). The trt: vocabulary stays http://.
• Treatment view (SynoTreatment.ts). Treatment, taxon-concept and taxon-name IRIs are shortened in either form, through a new shortPlaziId() in utils.ts. Before, only the http:// prefix was stripped: with https IRIs the treatment ID was the whole URL, which broke the XML and RDF links built from it, and cited taxa showed their full IRIs.

Testing

• deno check passes for advanced.ts, settings.ts, SettingsMenu.ts and SynoTreatment.ts. index.ts could not be type-checked because it imports Taxomplete from plazi.github.io, which this environment's network blocks. deno lint reports only the three existing problems. The changed TypeScript files are deno fmt-clean, apart from the embedded CSS in SynoTreatment.ts, which was already unformatted on next.
• Playwright/Chromium against a build served under /next/, with mocked SPARQL endpoints and a stub for Taxomplete: 30 checks for the settings menu on the search, SPARQL and settings pages, at desktop size and 375px. They cover failing, passing and edited custom URLs, Use anyway, Use from a link's server without side effects, a viewport resize while typing and after the keyboard closes, the gear scrolled out of view, and blocked storage. All pass, and each fixed problem has a check that fails without its fix. 8 more checks cover the search example (Go and Enter with an empty field, a typed name) and the title link on all four pages.
• shortPlaziId() checked on https and http treatment, taxon-concept and taxon-name IRIs, and on an unrelated URL, which it leaves unchanged.
• Not tested against live data. This environment's network blocks the SPARQL endpoints. According to the migration notes, Blazegraph and LINDAS serve https IRIs since 29 September. QLever was not yet rebuilt as of 1 October.

Not in this PR

Searching by an https taxon IRI, as the "Use as search Term" links do, needs synolib 3.4.8. That release accepts both forms and is on synolib's synolib2 branch. Its JSR publish failed with actorNotScopeMember, so 3.4.8 is not released yet. Once it is, the synolib version here needs to be raised to ^3.4.8.

🤖 Generated with Claude Code

https://claude.ai/code/session_01BpFw1BZH5x7sKpDDCsxubD

[Copilot]

🟡 Changes recommended

Clear the pending endpoint whenever the custom URL changes before validation.

1 open finding

• Clear stale pending URL when custom URL changes · New

What changed in this PR

This PR fixes settings-menu endpoint handling and updates SPARQL examples to use HTTPS Plazi IRIs.

Changes:

• Preserves failed custom endpoints as drafts until accepted.
• Improves custom endpoint restoration and mobile keyboard behavior.
• Migrates relevant SPARQL prefixes and example IRIs to HTTPS.

File	Summary
src/​components/​SettingsMenu.ts	Refines endpoint testing, persistence, and menu behavior. A moderate issue remains where cleared or invalid edits can restore an old pending URL.
src/​advanced.ts	Updates Plazi namespaces and example IRIs to HTTPS.

🧠 Review effort: Lite

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[retog]

Re-reviewed 842bff6, d920db8 and 60e0aa7. The six settings-menu threads are addressed as described and I resolved them: the popover now repositions once per frame and closes only when the gear leaves the view, choosing Custom URL… no longer navigates, the "Use" form is the explicit way back to a stored custom endpoint, the stored value is read back after saving, and the link check lives in one getter. A failing custom URL is a draft that survives closing the menu and is stored only by Use anyway.

Verified with deno check (against the real Taxomplete source), deno lint (the three pre-existing findings only), and 69 Chromium checks across the four pages at desktop and 375px, including focused scroll, blur-then-resize, the link page with a stored custom endpoint, blocked site data, and the empty search using the example name.

One new comment on the third commit, about the title link going back to /.

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[retog]

Reviewed 4678c7f (shortPlaziId). The regex covers the three /id/ namespaces in both schemes, the treatment ID that feeds the XML and RDF links is derived the same way as before for http IRIs, and no other http://…plazi.org string handling is left in src/ outside the example queries. deno check passes for SynoTreatment.ts and utils.ts; utils.ts is fmt-clean and SynoTreatment.ts was already unformatted on next. Nothing to add.

The only open thread is the title link on 60e0aa7.

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