ci: skip live external-reference tests by default in CI

[mhweber]

This branch and PR were generated by Copilot based on error in #1001. Add a testthat helper (helper-live.R) that skips tests requiring live downloads unless EPATADA_RUN_LIVE_TESTS=true and internet is available. Call the helper from live-reference tests in test-WQPWQXATTAINSCSTRefs.R. This prevents CI flakes when external downloads fail.

Pull Request Checklist (convert PR to draft if in progress)

Required

• Update your branch from the latest develop and resolve any merge conflicts

• Run devtools::test(), devtools::check(), and devtools::document() locally; ensure tests pass and fix any errors, warnings, or notes. Add new dependencies to DESCRIPTION and document appropriately

• Add/update vignettes for corresponding changes in functionality, list these under articles in _pkgdown.yml, and ensure added/updated vignettes run and build with proper formatting locally

• Request review from at least one developer team member (convert PR to ready for review if it was designated as in progress)

Best practices

• Include a summary of the changes made and relevant context/motivation

• Link issues to auto-close on merge (use Development sidebar or include "Closes #" in the PR)

• Refresh inline/block comments for clarity

• Update roxygen docs and include examples; review help pages

• Add/update tests in tests/testthat; review the bot's coverage report from test-coverage and confirm all changes are covered

Conditional

• If there is a bot spelling comment, run spelling::spell_check_package() locally and fix any misspellings; add approved project terms to WORDLIST with spelling::update_wordlist()

• If tests fail suggesting internal reference files need a refresh, run .TADA_UpdateRefFiles() and .TADA_UpdateExampleData() locally via MaintenanceScheduled.R or trigger the Component File Update GitHub Action

• If new example data files were added, document them in ExampleData.R and include them in MaintenanceScheduled.R for regular refresh

• If columns were added/updated, update RequiredCols.R

• If changes affect other package or the shiny app functions, update those impacted functions accordingly

[github-actions]

coverage-report

File	Coverage		Missing
All files	61%	✅

Minimum allowed coverage is 20%

Generated by 🐒 cobertura-action against a174e1c

[jbousquin]

Quick thoughts:

• Seems like copilot dropped a lot of unit tests that weren't replaced?
  We should discuss approach/objectives:
• This seems to skip when internet is down (i.e., user side) whereas what I've observed is server outages. What I've done in other projects is to have a list of base_url for all the systems being pinged and checking for 200. Using that approach to skip tests requires the connection between base_url and function/test, but can be more targeted.
• Higher level objective is to remove outside factors that are causing tests to fail when our code is doing what it should. Long-term I still think mocking test results is the best way to do that. However, what is lost w/ mocking (real time awareness of changes to services) could be informed by this type of approach (i.e., as a warning instead of a skip), so if it is a short-term fix it's not wasted effort.