* RF3 README update and moving RF3 examples
I updated the RF3 README for installation instructions that matched the RFD3 installation instructions. For the first example, I improve the instructions for running and fixed the output file descriptions to match what is now output by running the example. I commented out the 'Templating a Small Molecule' section because many of the files in that section were not present in the repository. The rest of the changes were mostly typo fixes.
I moved the examples from `foundry/docs/releases` to `foundry/models/rf3/docs` to match the organization of RFD3. The changes made to the JSON files just reflect this change of location.
* Changed paths in example JSON files to point to new RF3 examples location
* Updated the landing page for the RF3 documentation so that it links out to the README
* mc
* Add base class for inference engine
* refactor inference engine
* Move constants and components out of rfd3 folder
* Fixes to engine
* Update with working checkpoint
* revert layer utils
* Fix more imports
* Move alignment, conditiontransitionblock
* Update sampler name
* mc
* More import fixes
* make format
* Minor fixes
* mc
* Fix rf3 inference engine
* Fix inference sampler
* Fix modules
* Running inference
* Make format
* add pre-commit hook
* fix: RF3 inference (#670)
fix: make rf3 tests in new format
* Minor cleanup
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Co-authored-by: Nathaniel Corley <ncorley@uw.edu>
