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git: Prepare tests using direct Git invocations for bundled Git

Patrick Steinhardt requested to merge pks-tests-fix-direct-git-invocations into master

With the upcoming change to enable for bundled Git binaries some of our tests which execute Git directly will stop working because they wouldn't be able to derive the Git exec path. This MR thus prepares for the change by converting all such tests to either use gittest.Exec or a Git command factory.

Part of #3730 (closed)

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