Preserve absolute paths until report rendering#34
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Keeps absolute file paths while processing and converts only to relative paths in reports.
Depends on #29, #30, #31, #32, and #33.
This PRs diff will shrink as preceding PRs are merged and this branch is rebased.
Diff against previous branch: NickSdot:stack-02-cli-scope...NickSdot:stack-03-report-paths (different to diff in here only until the previous branch was merged)