similar to: How to make an R package that uses Boost.Thread, qualified to be published on CRAN or shared by the most

Dear listers, I am trying to install RcppBDT_0.2.1 on my Windows machine using the function install.packages("./RcppBDT_0.2.1.tar.gz", repos=NULL, type="source"). Since this package is not like most of other packages in that it requires Rcpp and boost, I have installed Rcpp and boost first, and executed the install.packages function. Then, I got the following error message:

[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

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 );

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

We have seen problems with a number of packages which use R/Rscript to run R code in configure or makefiles. (a) You must give a full path: there need be no version of R in the path, and if there is it might not be the version/build of R under which package installation is being done. So the general form is to use ${R_HOME}/bin/R to select the right version. And since ${R_HOME} might

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

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

I have been RTFM/doc/www, but I'm still lost. How does one tell R CMD INSTALL and R CMD check (both) that libraries are installed in non-usual places and so -I/APPS/include (or whatever) is necessary in CPPFLAGS and -L/APPS/lib (similarly) is necessary in LDFLAGS? I know I can hardwire them in pkg/src/Makevars, but this requires hand editing of that file by each installer (yuck!) rgentlem

I have been RTFM/doc/www, but I'm still lost. How does one tell R CMD INSTALL and R CMD check (both) that libraries are installed in non-usual places and so -I/APPS/include (or whatever) is necessary in CPPFLAGS and -L/APPS/lib (similarly) is necessary in LDFLAGS? I know I can hardwire them in pkg/src/Makevars, but this requires hand editing of that file by each installer (yuck!) rgentlem

Hi, I have written a small C++ function and compile it. However in R I can't see the function I have defined in C++. I have read some web-pages about Rcpp and C++ but it is a bit confusion for me. Anyway, This is the C++-code: #include <Rcpp.h> using namespace Rcpp; // [[Rcpp::export]] List compute_values_cpp(int totalPoints = 1e5, double angle_increment = 0.01, int radius =

.Call("compute_values_cpp") Also, if you were passing arguments to the C++ function you would need to declare the function differently. Do a search on "Rcpp calling C++ functions from R" HTH, Eric On Sun, Dec 3, 2017 at 3:06 AM, Martin M?ller Skarbiniks Pedersen < traxplayer at gmail.com> wrote: > Hi, > > I have written a small C++ function and compile it.

Hello, I'm using a Makevars.in file and running my code through gdb. I understand i should turn of -O2, but R's makeconf overrides my settings /ln/meraki/custom/lib64/R/etc/Makeconf:112: warning: overriding commands for target `.cc.o' in Makevars.in .cc.o: g++ -g ${PKG_CXXFLAGS} ${PKG_LIBS} ${RINC} ${RLIB} -c $< -o $@ Thank you S.

Is there anyway with some experience in using armadillo in R C++ extensions? My problem is the following: I programmed a function in a header looking like #include <armadillo> inline arma::vec foo(input) { ... do something return an arma::vec object } compiling this via R CMD INSTALL packagename (PKG_CXXFLAGS = -I/folder/of/armadillo and armadillo_bits in my package) I get the

Dear all, I don't bring my head around how to link an external C++ library with some R code using R CMD SHLIB and/or R CMD INSTALL . So does anybody can tell me how I could easily link an external library that is e.g. in /usr/local/lib/mMyLibrary ? Many thanks, David [[alternative HTML version deleted]]

I've been trying to learn about dynamically loading subroutines in R. Ultimately I would like to use this approach to implement some simulations. For the moment though, I've run into a problem compiling c++ code and loading it into R. The 'C/C++' and 'R'code below works fine when compiled and linked with gcc, but gives an error when the library is compiled and linked with

Hello, I'm writing an R package that is mainly written in C++. By default, R CMD INSTALL creates C/C++ flags as follows: -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -g However, my package is fairly large. With debug info compiled into the library, the generated .so file is over 200MB. Without debug info, it's about 30MB. I hope

Martin, You are making your life way too complicated. There are a number of things I would do differently: 0) Wrong list. Rcpp has its down, rcpp-devel, and I basically do not read this and would have missed this were it not for luck. On 3 December 2017 at 02:06, Martin M?ller Skarbiniks Pedersen wrote: | I have read some web-pages about Rcpp and C++ but it is a bit confusion | for me. 1)

Dear all, I recently uploaded a new package Rlibeemd to CRAN (http://cran.r-project.org/web/packages/Rlibeemd/index.html, and in github: https://github.com/helske/Rlibeemd), and simple example in help files seems to throw an error on Solaris: Version: 1.3.1 Check: examples Result: ERROR Running examples in ?Rlibeemd-Ex.R? failed The error most likely occurred in: > ### Name:

Dear People, Over the last few days I've been writing C++ to compile as a shared library (previously I have always used C). Not entirely to my surprise, I am getting errors. Specifically, when I try to load the shared library, I get Error in dyn.load(x, as.logical(local), as.logical(now)) : unable to load shared library "/home/faheem/research/thesis/sim/ms/ms.so":

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,