Submitr

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* Documentation refactor for ReadTheDocs to use an iframe for the logo.

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* Make the heading for "Basic Setup" to be "Installing Prerequisites",
since that naming is more standard.
* Rename the "Getting Started" option to more standard "Using submitr",
since getting started is ambiguous between installation and usage.
* Add an "Implementation of submitr" heading on the implementation part
to make it clear to end users they don't need to look at this.
* Reorganize to make experimental ``rclone`` support *not* be the first thing
that you see in this doc,
since non-experimental stuff needs to be first.
* Make ``rclone`` section not pretend to tell you about ``awscli``
in the heading, since the actual text barely mentions ``awscli``.
* Light editing on the opening of the section about ``rclone`` to make
the motivational part clearer.

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* Fix auto-publish on pushing a tag.
* Disabled ``scripts/publish`` since we're using functionality from ``dcicutils.scripts`` now.
* Adjusted headings to present with better indentation and better recursive header presentation.

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* Auto-submit to readthedocs on any non-beta version tag push (v* except v*b*).
* Fix a bug in readthedocs submission where we were using branches=master and getting an error saying
``{"detail":"Parameter \"ref\" is required"}``. ChatGPT thinks this is because we wanted a curl
parameter of ``-d "ref=master"`` rather than ``-d "branches=master"`` like we had.
* Remove spurious "Module Contents" headings in three places.
We do not put code in ``__init__.py`` so these sections would always be empty (and confusing).

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* Add a pretty logo
* Warn about not yet being still experimental.
* Better badges.

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* Some commands will now default the app to 'smaht' better.
* In general, a lot of rewriting of 'cgap' references to
be either SMaHT or to reference a centrally defined default.