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Linking to native routines in another package: a demo

Jitao David Zhang, 2021.01.06

Linking to native routines in another package

How to use C codes in another R package? A demo.

Background

The package pkgIn links to native routines pkgOut_func and pkg_version exported by pkgOut. Please check both packages out to see the details.

Major notes

The examples were built by following the instructions given in the Writing R Extensions manual.

A few details, however, may need highlighting, because I stumbled upon them on the first attempts.

Keep in mind that we use pkgOut to refer to the package that exports a native routine and pkgIn to refer to the package that uses a foreign routine.

  1. Use R_RegisterCCallable to register the function in the pkgOut package. They do not have to be registered routines called by .C/.Call/.Fortran/.External. Rather, they can be any C function.
  2. import or importFrom (or @import in roxygen2) must be called in the pkgIn package so that the exported function from the pkgOut package can be found.
  3. Add LinkingTo: pkgOut in the DESCRIPTION file in the incoming package. This will allow linking native routines.
  4. Use (TYPE(\*)(PARAMETER TYPE)) R_GetCCallable("pkgOut", "pkgOut_func") in R_init_pkgIn to retrieve the function in the pkgIn package.
  5. DO NOT include the header file of outgoing package in the init file of incoming package. Otherwise, an error message complaining left-hand expression assignment will be raised.

Minor notes

  1. Only functions returning SEXP can be called by .Call, otherwise the memory will not be mapped and the R session will die ugly. This also apply to void functions.
  2. Check NAMESPACE in case a .Call function cannot be found. Particularly when package.skeleton was used to generate the package structure and then roxygen2 was used, in which case the NAMESPACE file is not overwritten by default.
  3. Use SET_STRING_ELT(SEXP object, 0, mkChar(char \*)) to convert C strings to R strings, and CHAR(STRING_ELT(SEXP object, 0)) to do the reverse, namely to convert R strings to constant (const) C strings.

Prior art and relevant resources

This is not the first attempt to create a minimalistic example of linking native routines in R for teaching and demonstration purposes. For instance, a project with similar purposes was created by Davis Vaughan and can be found here: https://github.com/DavisVaughan/cexport. Canonical examples that can be found in the Writing R Extensions and other online resources that demonstrate between-package native-routine linking include packages zoo and xts, xts and RcppXts (with a write-up from 2013 available here), lme4 and Matrix, as well as expm and Matrix.

This piece of work is different from real-life packages, because it uses minimalistic examples to demonstrate the purpose and the basic techniques, without involving non-essential commands relevant for native routine linking. Compared with the cexport package created by Davis Vaughan, the demo packages here are more recent (compatible with R-4.0), arguably more compact (because both packages are stored in the same directory), and come with a visual element that help readers appreciate the issue.

Acknowledgement

I thank David Vaughan, Dirk Eddelbuettel, and Jan Gorecki for providing resources, highlighting previous work and art, and offering alternative views to improve this piece of work.