cschwarz-stat-sfu-ca
commented
3 years ago I'm afraid that you've lost me... I'm a Mac user and have seldom used C++ (except to write TMB functions).
I don't have a Makevars file (that I'm aware of), nor do I know how to set C++ compiler options in this make file. Can you point me in the right direction?
Can I specify this using the flags= parameter of the TMB::compile() function?
For example, I ran
library(TMB) compile( "simple.cpp", flags="-std=c++11") # compile() is a function within the TMB library
and it looks like the std=c++11 in the output below appears to be set (i'm assuming that if it appears twice in the call, it overrides the gnu++11 call??
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/PROGRA~1/R/R-41~1.0/include" -DNDEBUG -I"C:/Rlibs/TMB/include" -I"C:/Rlibs/RCPPEI~1/include" -DTMB_SAFEBOUNDS -DLIB_UNLOAD=R_unload_simple -DTMB_LIB_INIT=R_init_simple -std=c++11 -c simple.cpp -o simple.o In file included from C:/Rlibs/RCPPEI~1/include/Eigen/Core:397, from C:/Rlibs/RCPPEI~1/include/Eigen/Dense:1, from C:/Rlibs/TMB/include/TMB.hpp:53, from simple.cpp:1:
but this leads to the same compilation error ....
double'} [-Wignored-attributes] enum { ^ make: *** [C:/PROGRA~1/R/R-41~1.0/etc/x64/Makeconf:245: simple.o] Error 1 Error in compile("simple.cpp", flags = "-std=c++11") : Compilation failed
Thanks Carl
On Sun, May 23, 2021 at 6:34 PM xiangjiexue @.***> wrote:
Did you include "std=c++11" in your Makevars? My guess is that isfinite() is a c++11 function (see https://eigen.tuxfamily.org/dox/group__CoeffwiseMathFunctions.html). I know that with clang++, c++11 is enabled by default but I am not sure about windows distribution of gcc 8.2.0.
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Description:
Using the isfinite() function in TMB cases compiler error on Windows but not on Macintosh when using compile() in R
Reproducible Steps:
Here is my simple.cpp file>
include
template
Type objective_function::operator() ()
{
DATA_VECTOR( left ); // left and right values PARAMETER( log_shape );
Type test; Type test2;
test = pow(left(1)-log_shape,2);
test2 = isfinite(test);
ADREPORT (test); REPORT(test); return test2; };
Here is my R code
library(TMB) compile( "simple.cpp" ) # compile() is a function within the TMB library
dyn.load(dynlib("simple"))
simple.model <- MakeADFun( data= list(left=10.1), parameters=list(log_shape=3.1 ), DLL="simple" )
simple.model$fn(simple.model$par)
Current Output:
When running the R code on Macintosh
i.e. a successful compilation
When running the R code on Windows it terminates with C:/Rlibs/RCPPEI~1/include/Eigen/src/Core/CoreEvaluators.h:960:8: warning: ignoring attributes on template argument 'Eigen::internal::packet_traits::type' {aka '__vector(2) double'} [-Wignored-attributes]
enum {
^
make: *** [C:/PROGRA~1/R/R-41~1.0/etc/x64/Makeconf:245: simple.o] Error 1
Error in compile("simple.cpp") : Compilation failed
If you comment out the isfinite() statement it compiles fine.
TMB Version:
Mac: > packageVersion("TMB") [1] ‘1.7.20’
Windows
R Version:
Mac: "R version 4.0.5 (2021-03-31)"
Windows: "R version 4.1.0 (2021-05-18)"
Operating System:
Mac: OS 11.3.1
Windows: Windows 8.1 Pro
Thanks Carl Schwarz