Adding CLI walkthrough (cytomining#697)

* add CLI walkthrough

* clean up

* Apply suggestion from @d33bs

Co-authored-by: Dave Bunten <ekgto445@gmail.com>

* [pre-commit.ci lite] apply automatic fixes

* add uv recommends, dropping double --

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Co-authored-by: Dave Bunten <ekgto445@gmail.com>
Co-authored-by: pre-commit-ci-lite[bot] <117423508+pre-commit-ci-lite[bot]@users.noreply.github.com>

Author: 3 people