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Backport #22037. When deleting a closed issue, we should update both `NumIssues`and `NumClosedIssues`, or `NumOpenIssues`(`= NumIssues -NumClosedIssues`) will be wrong. It's the same for pull requests. Releated to #21557. Alse fixed two harmless problems: - The SQL to check issue/PR total numbers is wrong, that means it will update the numbers even if they are correct. - Replace legacy `num_issues = num_issues + 1` operations with `UpdateRepoIssueNumbers`.