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[tool] Fix false positives in update-exceprts (#6950)
When determining whether or not to fail with `--fail-on-change`, only look at .md files. In some cases, running the necessary commands (e.g., `flutter pub get`) may change unrelated files, causing fales positive failures. Only changed documentation files should be flagged. Also log the specific files that were detected as changed, to aid in debugging any future false positives. Fixes flutter/flutter#111592 Fixes flutter/flutter#111590
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