[Tests] Replace filesystem mocks with inTemporaryDirectory in write-app-logs.test.ts

[gonzaloriestra]

WHY are these changes introduced?

The write-app-logs.test.ts was using filesystem mocks (vi.mock('@shopify/cli-kit/node/fs')), which is discouraged in favor of using real temporary directories for better reliability and trust in the test suite.

WHAT is this pull request doing?

• Refactored packages/app/src/cli/services/app-logs/dev/write-app-logs.test.ts to use inTemporaryDirectory.
• Replaced mock assertions with real file content checks using readFile.
• Cleaned up unused ignoreDependencies in the root package.json as suggested by pnpm knip.

How to test your changes?

Run the specific test file:
pnpm --filter @shopify/app vitest run src/cli/services/app-logs/dev/write-app-logs.test.ts

Verify that pnpm knip no longer reports unused item configuration hints.

Duplicate check

I attempted to run the gh command to check for duplicate PRs:
gh pr list --repo Shopify/cli --state all --limit 200 --search 'label:"Jules" "Tests" in:title' --json number,title,state,url,body,files
However, gh is not available in this environment. I checked the git logs and did not find any recent PRs with the [Tests] prefix that target this file or use this technique for this subsystem.

Checklist

• I've considered possible cross-platform impacts (Mac, Linux, Windows)
• I've considered possible documentation changes
• I've considered analytics changes to measure impact
• The change is user-facing — I've identified the correct bump type (patch for bug fixes · minor for new features · major for breaking changes) and added a changeset with pnpm changeset add

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PR created automatically by Jules for task 18165397204241329784 started by @gonzaloriestra

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