* installing *source* package ‘rxode2et’ ...
** package ‘rxode2et’ successfully unpacked and MD5 sums checked
** using staged installation
R version 4.3.2 (2023-10-31) -- "Eye Holes"
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Platform: x86_64-apple-darwin20 (64-bit)
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> ## This is only for rxode2
> .in <- suppressWarnings(readLines("src/Makevars.in"))
>
> if (.Platform$OS.type == "windows" && !file.exists("src/Makevars.win")) {
+ .in <- gsub("@CXX14STD@", "-std=c++1y", .in)
+ file.out <- file("src/Makevars.win", "wb")
+ writeLines(gsub("@ISYSTEM@", "I", .in),
+ file.out)
+ close(file.out)
+ } else {
+ .in <- gsub("@CXX14STD@", "-std=gnu++14", .in)
+ file.out <- file("src/Makevars", "wb")
+ writeLines(gsub("@ISYSTEM@", "isystem", .in),
+ file.out)
+ close(file.out)
+ }
>
> if (file.exists("man/reexports.Rd")) {
+ l <- readLines("man/reexports.Rd")
+ if (!any(regexpr("[\\]value", l) != -1)) {
+ l <- c(l, "\\value{ Inherited from parent routine }")
+ file.out <- file("man/reexports.Rd", "wb")
+ writeLines(l, file.out)
+ close(file.out)
+ }
+ }
>
>
> unlink("R/rxode2_md5.R")
>
> cpp <- list.files("src", pattern = ".(c|h|cpp|f)$")
> #Rfiles <- list.files("R/", pattern = ".R")
>
> cmd <- file.path(R.home("bin"), "R")
> args <- c("CMD", "config")
>
> md5 <- digest::digest(c(lapply(c(paste0("src/", cpp)#,
+ #paste0("inst/include/", include)#,
+ #paste0("R/", Rfiles)
+ ), digest::digest, file = TRUE),
+ ## vapply(c("BLAS_LIBS", "CC", "CFLAGS", "CPICFLAGS",
+ ## "CXX", "CXXFLAGS", "CXXPICFLAGS",
+ ## "CXX11", "CXX11STD", "CXX11FLAGS", "CXX11PICFLAGS",
+ ## "CXX14", "CXX14STD", "CXX14FLAGS", "CXX14PICFLAGS",
+ ## "CXX17", "CXX17STD", "CXX17FLAGS", "CXX17PICFLAGS",
+ ## "CXX20", "CXX20STD", "CXX20FLAGS", "CXX20PICFLAGS",
+ ## "FC", "FFLAGS", "FCFLAGS", "FPICFLAGS"),
+ ## function(cfg) {
+ ## rawToChar(sys::exec_internal(cmd, c(args, cfg))$stdout)
+ ## }, character(1)
+ ## ),
+ ""
+ ))
> unlink("R/rxode2et_md5.R")
> md5file <- file("R/rxode2et_md5.R", "wb")
> writeLines(sprintf("rxode2et.md5 <- \"%s\"\n", md5), md5file)
> close(md5file)
>
> l <- readLines(file.path(system.file(package="rxode2random"), "include", "rxode2random_as.h"))
> l <- gsub("qtest", "_rxode2et_qtest", l)
>
> rxode2et_as.h <- file("src/rxode2et_as.h", "wb")
> writeLines(l, rxode2et_as.h)
> close(rxode2et_as.h)
>
> proc.time()
user system elapsed
0.165 0.052 0.223
--------[begin src/Makevars]--------
# -*- mode: makefile-gmake -*-
################################################################################
## Package library flags.
PKG_LIBS = $(LAPACK_LIBS) $(BLAS_LIBS) $(FLIBS) $(SHLIB_OPENMP_CXXFLAGS)
# Release options
PKG_CFLAGS = -D_isrxode2et_
PKG_CXXFLAGS = $(SHLIB_OPENMP_CXXFLAGS) -D_isrxode2et_
--------[end src/Makevars]--------
--------[begin R/rxode2et_md5.R]--------
rxode2et.md5 <- "e66f5422096c8f3ded6ff79d6fcddac8"
--------[begin R/rxode2et_md5.R]--------
** libs
using C compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
using C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
using SDK: ‘MacOSX11.3.sdk’
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/rxode2random/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/rxode2parse/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/Rcpp/include' -I/opt/R/x86_64/include -D_isrxode2et_ -fPIC -falign-functions=64 -Wall -g -O2 -c RcppExports.cpp -o RcppExports.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/rxode2random/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/rxode2parse/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/Rcpp/include' -I/opt/R/x86_64/include -D_isrxode2et_ -fPIC -falign-functions=64 -Wall -g -O2 -c cbindThetaOmega.cpp -o cbindThetaOmega.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/rxode2random/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/rxode2parse/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/Rcpp/include' -I/opt/R/x86_64/include -D_isrxode2et_ -fPIC -falign-functions=64 -Wall -g -O2 -c et.cpp -o et.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/rxode2random/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/rxode2parse/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/Rcpp/include' -I/opt/R/x86_64/include -D_isrxode2et_ -fPIC -falign-functions=64 -Wall -g -O2 -c etTran.cpp -o etTran.o
clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/rxode2random/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/rxode2parse/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/Rcpp/include' -I/opt/R/x86_64/include -D_isrxode2et_ -fPIC -falign-functions=64 -Wall -g -O2 -c init.c -o init.o
clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/rxode2random/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/rxode2parse/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/Rcpp/include' -I/opt/R/x86_64/include -D_isrxode2et_ -fPIC -falign-functions=64 -Wall -g -O2 -c isEt.c -o isEt.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/rxode2random/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/rxode2parse/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/Rcpp/include' -I/opt/R/x86_64/include -D_isrxode2et_ -fPIC -falign-functions=64 -Wall -g -O2 -c rxStack.cpp -o rxStack.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/rxode2random/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/rxode2parse/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/Rcpp/include' -I/opt/R/x86_64/include -D_isrxode2et_ -fPIC -falign-functions=64 -Wall -g -O2 -c rxode2random.cpp -o rxode2random.o
rxStack.cpp:57:7: warning: variable 'ncols' set but not used [-Wunused-but-set-variable]
int ncols=3;
^
1 warning generated.
clang++ -arch x86_64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/x86_64/lib -o rxode2et.so RcppExports.o cbindThetaOmega.o et.o etTran.o init.o isEt.o rxStack.o rxode2random.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/opt/gfortran/lib/gcc/x86_64-apple-darwin20.0/12.2.0 -L/opt/gfortran/lib -lgfortran -lquadmath -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Volumes/Builds/packages/big-sur-x86_64/results/4.3/rxode2et.Rcheck/00LOCK-rxode2et/00new/rxode2et/libs
** generating debug symbols (dSYM)
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (rxode2et)