[R-pkg-devel] adding rPython as a suggested package
Hi: Just a comment tangentially related to this topic: There are a number of R packages for calling Python from R, including the "rPython" and "reticulate" packages mentioned in this thread. Another is "PythonInR". ( https://cran.r-project.org/web/packages/PythonInR/index.html). These packages address the problem of invoking a Python module or package which is installed on the user's machine. I.e., they answer the question, "How can I access from R a suite of useful Python tools I have configured in my workspace?" There is a complementary question, "How can I expose in an R package specific functionality written in Python?" In the latter case the Python function is written specifically for the R package and the R package should be *isolated* from any installed Python environment. The package should not change any installed Python environment and anything you do in Python should not affect how the R package executes. We have addressed this second problem with a package PythonEmbedInR ( https://github.com/Sage-Bionetworks/PythonEmbedInR). This is a modification of PythonInR which *embeds* a hidden/private copy of Python 3 within the R package, totally isolated from any other Python runtime concurrently installed on the machine. Further it works *cross platform* (Linux, Windows and MacOS). We build the package binaries and host them using Github pages, so to install you simply add to your list of CRAN repo's, "https://sage-bionetworks.github.io/ran". You need not build from source to use the package on Windows or Mac. This is significant because building the package also builds the Python runtime. Any questions, please ask. Bruce Hoff Sage Bionetworks 2017-12-01 7:50 GMT+01:00 Slava Lyubchich <lyubchich at umces.edu>:
Hello,
I have a package on CRAN (funtimes) and I am trying to add a function
that uses some Python code (only one function in the package needs
Python, others do not). In order to do that, I
1) add in the DESCRIPTION
Suggests: rPython
2) in the R function, use
rPython::python.load("CRAD.py")
3) put CRAD.py in the top folder of the package (together with
DESCRIPTION and NAMESPACE).
The automatic CRAN check returns it with notes:
-- Package suggested but not available for checking: 'rPython'
rPython is not available for Windows. You can see "OS_type: unix" in its DESCRIPTION. If you want to support Windows systems, take a look at the reticulate package, which is another R interface to Python.
-- Non-standard file/directory found at top level: 'CRAD.py'
Create an inst/ directory and put it there, as suggested in "1.1.7 Non-R scripts in packages" in the "Writing R Extensions" manual. I?aki
Could you recommend how to fix that? Where should I move to the additional file with code? https://cran.r-project.org/package=rPython <https://cran.r-project.org/package=rPython> Best regards, Slava -- V. Lyubchich Research Assistant Professor Chesapeake Biological Laboratory University of Maryland Center for Environmental Science