* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘nlmixr2extra’ ...
** package ‘nlmixr2extra’ successfully unpacked and MD5 sums checked
** using staged installation
R version 4.4.0 Patched (2024-04-30 r86503) -- "Puppy Cup"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> if (!dir.exists("data")) {
+ dir.create("data")
+ }
>
> .in <- suppressWarnings(readLines("src/Makevars.in"))
> if (.Platform$OS.type == "windows" && !file.exists("src/Makevars.win")) {
+ file.out <- file("src/Makevars.win", "wb")
+ writeLines(.in, file.out)
+ close(file.out)
+ } else {
+ file.out <- file("src/Makevars", "wb")
+ writeLines(.in, file.out)
+ close(file.out)
+ }
>
> proc.time()
user system elapsed
0.157 0.026 0.172
--------[begin src/Makevars]--------
## -*- mode: makefile; -*-
PKG_CXXFLAGS = $(SHLIB_OPENMP_CXXFLAGS) -DARMA_USE_CXX11
PKG_LIBS = $(SHLIB_OPENMP_CXXFLAGS) $(LAPACK_LIBS) $(BLAS_LIBS) $(FLIBS)
--------[end src/Makevars]--------
** libs
using C compiler: ‘gcc-13 (Debian 13.2.0-23) 13.2.0’
using C++ compiler: ‘g++-13 (Debian 13.2.0-23) 13.2.0’
make[1]: Entering directory '/tmp/RtmpTgOQAe/R.INSTALL1547706012651d/nlmixr2extra/src'
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -DARMA_USE_CXX11 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -DARMA_USE_CXX11 -fpic -g -O2 -Wall -pedantic -mtune=native -c preCondInv.cpp -o preCondInv.o
g++-13 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o nlmixr2extra.so RcppExports.o init.o preCondInv.o -fopenmp -llapack -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/tmp/RtmpTgOQAe/R.INSTALL1547706012651d/nlmixr2extra/src'
make[1]: Entering directory '/tmp/RtmpTgOQAe/R.INSTALL1547706012651d/nlmixr2extra/src'
make[1]: Leaving directory '/tmp/RtmpTgOQAe/R.INSTALL1547706012651d/nlmixr2extra/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-nlmixr2extra/00new/nlmixr2extra/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package ‘nlmixr2extra’
finding HTML links ... done
adaptivelassoCoefficients html
addCatCovariates html
addorremoveCovariate html
adjustedlassoCoefficients html
backwardSearch html
bootplot html
bootstrapFit html
buildcovInfo html
buildupatedUI html
covarSearchAuto html
foldgen html
forwardSearch html
horseshoeSummardf html
knit_print.nlmixr2FitCore html
lassoCoefficients html
lassoSummardf html
normalizedData html
optimUnisampling html
preconditionFit html
reexports html
regularmodel html
theoFitOde html
** 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 (nlmixr2extra)