Mark network examples as \dontrun to prevent CI failures

[Copilot]

R CMD check with --run-donttest executes \donttest{} blocks, causing CI failures when examples make GitHub API calls. Changed example wrappers from \donttest{} to \dontrun{} which are never executed during checks.

Changes

• R source files: Updated example blocks in 4 files to use \dontrun{}

  • R/spot-files.R (2 examples)
  • R/list-files-wd.R
  • R/network-plot.R
  • R/list-files-gh-repo.R

• Documentation files: Regenerated 5 man/*.Rd files to reflect updated examples

  • man/spot_funs_files.Rd
  • man/unnest_results.Rd
  • man/list_files_wd.Rd
  • man/network_plot.Rd
  • man/list_files_github_repo.Rd

All affected examples call list_files_github_repo() which makes network requests to GitHub's API.

Original prompt

Mark network examples as \dontrun to avoid network calls in R CMD check

Problem summary:
The R CMD check in CI is failing when running examples with --run-donttest because several examples perform GitHub API requests. These should not be executed during package checks. Currently examples are wrapped in \donttest{ ... } which are still executed with --run-donttest. To prevent execution during checks, convert those example blocks to \dontrun{ ... }.

Goal:

• Update example blocks in R source files so that networked examples are wrapped with \dontrun{ ... } instead of \donttest{ ... }.
• Run roxygen2::roxygenise('.') to regenerate man/*.Rd files.
• Commit changes to the open PR branch copilot/add-roxygen-documentation-list-files-github-gists.
• Push and update the open PR.

Files to change (examples only):

• R/spot-files.R
• R/list-files-wd.R
• R/network-plot.R
• R/list-files-gh-repo.R

Commit message:
Mark network examples as \dontrun to avoid network calls in R CMD check

Pull request:
Update the existing PR (22) branch copilot/add-roxygen-documentation-list-files-github-gists

Notes:

• Keep behavior of functions unchanged, only alter example wrappers and regenerate Rd files.

This pull request was created from Copilot chat.

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