I'll take a look in detail ASAP. You'll have to update the paths/imports unfortunately since I just changed it all last night based on the entire discussion we had in the Rust channel...

But it should be pretty easy and you can just copy-paste

One difference from the pyo3 bindings is that you can't build R S4 classes directly in rust, and so conceptually the R bindings work a little differently for object-related things.

In refget.rs there is a function digest_fasta_raw() that returns the rust digest_fasta results as an R native list. In refget.R there is a wrapper function digest_fasta() that takes the list from rust and returns a custom S4 SequenceCollection object. Here the print methods for this object are also defined in R.

GlobalRefgetStore is a more complex object with its own rust methods, and since you can't define R S4 classes and methods in rust like pyclass and pymethods, AI suggested writing a wrapper R class and using an external pointer to a rust object in memory. So in refget.rs the bindings for GlobalRefgetStore methods are implemented as separate functions that take in the pointer to a GlobalRefgetStore object as an input. And in refget.R the wrapper R GlobalRefgetStore class has methods that call these functions. It seems to work with the example file refget_example.R I included but an issue with this approach is that if you export your R environment with this wrapper object you only save the pointer to the rust object and not the actual object, so you can't load the object back from the saved env.

Just make sure you're in sync with the latest master!