similar to: Use of R and Rscript in configure/Makevars in packages

Hi, I am trying to package some code to use with R and wanted to call Rscript from within the Makevars file (I am trying to automate the setting of the location of a third party library depending on what is available / the system the package is being installed on). If I just have a simple Makevars containing PKG_LIBS= -lnag_nag -L/fserver/nagprod/FL22/fll6a22df/lib the package is built

Hi, Recently, I made an R package that used the C++ library Boost.Thread (http://www.boost.org/doc/libs/1_54_0/doc/html/thread.html) for multithreading. Previously, I have posted a question at stackoverflow (http://stackoverflow.com/questions/19651954/is-it-possible-to-build-an-r-package-which-use-rcpp-and-boost-thread-on-http), and I also asked at rcpp-devel

Dear R-devel members, recently, I ran into the following error message (R-devel 2018-01-31): 'Rscript' should not be used without a path -- see par. 1.6 of the manual I would like to know more about it, why is it required to run Rscript with a path, and where is that par. 1.6 of the manual. I get this error message during Travis r-devel build of my package for generating makefiles. I

Dear R experts, recently I started developing a Rcpp package "OpenMPTest". Within that package I want to use OpenMP, as in the following code example: // header file #include <omp.h> using namespace Rcpp ; RcppExport SEXP testOpenMP( SEXP nThreads ) ; // cpp file SEXP testOpenMP( SEXP nThreads ) { BEGIN_RCPP NumericVector numberThreads = NumericVector( nThreads );

Dear all, I am trying to use multiple version of R unpacked from CRAN deb files. It does work successfully, except for some packages installation, whether Rscript has been used. I have configured alternatives and switch R environments without any problem and can install most of the packages. '====================================================== $ update-alternatives --display R R - auto

L.S. In this bug report https://bugs.r-project.org/bugzilla3/show_bug.cgi?id=14493#c1 it is mentioned that after moving an R installation one should regenerate the Rscript executable. Is there an easy way to do so (after an R installation has been moved)? I have not found any information in the R installation and administration manual. Many thanks in advance for any pointer. Best wishes,

[cross-posted from bioc-devel list] Hi all, I have a subtle question related to how R CMD SHLIB handles variables in make child processes. In more detail: I am the maintainer of the 'msa' package which has been in Bioconductor since April 2015. This package integrates three open-source libraries for multiple sequence alignment. This is organized in the following way: in src/, there

http://cran.r-project.org/doc/manuals/R-exts.html#Configure-and-cleanup near the start of 1.2.1 Using Makevars says > There are some macros which are set whilst configuring the building of > R itself and are stored in R_HOME/etcR_ARCH/Makeconf. That makefile is > included as a Makefile after Makevars[.win], and the macros it defines > can be used in macro assignments and make command

Hello, I've been trying to make LinkingTo work when the package linked to has c++ code. I've put dumb packages to illustrate this emails here ; http://addictedtor.free.fr/misc/linkingto Package A defines this C++ class: class A { public: A() ; ~A() ; SEXP hello() ; } ; Package B has this function : SEXP say_hello(){ A a ; return a.hello() ; } headers of package A are copied

Good Morning, I have recently built R version 2.7.0 on a CentOS release 4.6, 64-bit system using the following command: ./configure --prefix=/usr/local/r-2.7.0 Everything built fine and works properly except for Rscript which is looking for files in the original build directory instead of the specified install directory. Did I forget to add a flag or is this a bug? TIA, Gregg.

Full_Name: Philip R. Kensche Version: 2.9.1 OS: Linux Submission from: (NULL) (131.174.146.252) Use case: Run R scripts using bin/Rscript or "bin/R --no-restore --file=<script-file> --args <args>" in a heterogeneous computing grid in which it is not possible to predict the actual installation directory of the R binaries. Problem: The script bin/R and the wrapper

Dirk, thank you a thousand times. Indeed, src/Makevars was wrong. I modified Makevars so that now looks like the below and the package now compiled and linked properly. CXX_STD = CXX11 PKG_LIBS += $(SHLIB_OPENMP_CXXFLAGS) $(LAPACK_LIBS) $(BLAS_LIBS) $(FLIBS) $(shell ${R_HOME}/bin/Rscript -e "RcppParallel::RcppParallelLibs()") PKG_CXXFLAGS = $(SHLIB_OPENMP_CXXFLAGS) -I../inst/include

Le 27/09/16 ? 13:31, Dirk Eddelbuettel a ?crit : > > On 27 September 2016 at 09:37, Eric Deveaud wrote: > | Hello, > | > | I'm tring to install a Rpackage that holds some C//C++ code > | > | as far as I understood the R library generic compilation mechanism, > | compilation of C//C++ sources is controled > | > | 1) at system level by the ocntentos

When I install an R package with cpp codes such as rrcov via CRAN (under R 3.1.1, using no Makevars file and under Ubuntu 14.04 using GCC 4.8), the cpp code is compiled with the -o3 flag (in fact, looking at the Makeconf file this seem to again be the default since R 3.1.1) But when I install my own package via CRAN it is compiled with the -o2 flag. My questions are what is causing my

Thanks for bringing the question over from StackOverflow [1]. I am not very impressed that you STILL hide behind a pseudonym and I am starting to question my sanity as to why I take time out to help someone like that. Anyway, read on ... [1] http://stackoverflow.com/questions/35313704/rscript-launch-custom-r/ On 10 February 2016 at 15:50, Cron Acronis wrote: | Dear all, | | I am trying to use

Hello, In the src folder of my R package I have a.cc b.cc f/g/x.cc my Makevars.in has all: $(SHLIB) upon installing only, a.o and b.o is build and the final dll is comprised of a.o and b.o How can I instruct $(SHLIB) to pick up its source files from all subdirectories (or maybe a subset, though here it will be all) in src ? Much thanks Saptarshi

Dear R-developers, I am trying to reproduce the autoconf.ac example from R-ext and fail. My autoconf file looks like this [autoconf.ac] # original by Friedrich Leisch, much changed by BDR AC_INIT([SBMLodeSolveR]) dnl Select an optional include path, from a configure option dnl or from an environment variable. AC_ARG_WITH([sbmlode-include],

I am troubled by what appears to be a glitch in the current distribution, or in its installation on our system. I've traced it, and found a work- around. Is this normal? Is there a cleaner solution? The problem: During a package installation, the warning message "WARNING: ignoring environment value of R_HOME" from line 31 of <R_HOME>/bin/R is accidentally spliced into the

As a package author, it is in my opinion irresponsible to override these system settings (which is why it is also impossible). You have no idea what system it is being deployed on, I mean, you don't even know if the compiler is gcc. If a user wants (say) heavy optimization they will compile R with optimization. (For this reason I also don't think users should modify their ~/.R/Makevars,

On Wed, 10 Feb 2016 10:18:51 -0600, Dirk Eddelbuettel wrote: > Thanks for bringing the question over from StackOverflow [1]. I am not > very impressed that you STILL hide behind a pseudonym and I am starting > to question my sanity as to why I take time out to help someone like > that. Anyway, read on ... > > [1]