* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘moveHMM’ ...
** package ‘moveHMM’ successfully unpacked and MD5 sums checked
** using staged installation
** 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/Rtmpvg0Qrl/R.INSTALL13d093556360ff/moveHMM/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 -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 moveHMM_init.c -o moveHMM_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 -fpic -g -O2 -Wall -pedantic -mtune=native -c nLogLike.cpp -o nLogLike.o
nLogLike.cpp: In function ‘double nLogLike_rcpp(int, arma::mat, arma::mat, Rcpp::DataFrame, std::string, std::string, arma::mat, arma::mat, arma::rowvec, Rcpp::IntegerVector, bool, bool, Rcpp::IntegerVector)’:
nLogLike.cpp:187:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const unsigned int’} [-Wsign-compare]
187 | for(int i=0 ; i<allProbs.n_rows ; i++) {
| ~^~~~~~~~~~~~~~~~
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 -fpic -g -O2 -Wall -pedantic -mtune=native -c trMatrix.cpp -o trMatrix.o
g++-13 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o moveHMM.so RcppExports.o moveHMM_init.o nLogLike.o trMatrix.o -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/Rtmpvg0Qrl/R.INSTALL13d093556360ff/moveHMM/src'
make[1]: Entering directory '/tmp/Rtmpvg0Qrl/R.INSTALL13d093556360ff/moveHMM/src'
make[1]: Leaving directory '/tmp/Rtmpvg0Qrl/R.INSTALL13d093556360ff/moveHMM/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-moveHMM/00new/moveHMM/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 ‘moveHMM’
finding HTML links ... done
AIC.moveHMM html
CI html
allProbs html
angleCI html
dexp_rcpp html
dgamma_rcpp html
dlnorm_rcpp html
dvm_rcpp html
dweibull_rcpp html
dwrpcauchy_rcpp html
elk_data html
exGen html
example html
fitHMM html
getPalette html
getPlotData html
haggis_data html
is.moveData html
is.moveHMM html
logAlpha html
logBeta html
moveData html
moveHMM html
n2w html
nLogLike html
nLogLike_rcpp html
parDef html
plot.moveData html
plot.moveHMM html
plotPR html
plotSat html
finding level-2 HTML links ... done
plotStates html
plotStationary html
predictStationary html
predictTPM html
prepData html
print.moveHMM html
pseudoRes html
simData html
stateProbs html
stationary html
summary.moveData html
trMatrix_rcpp html
turnAngle html
viterbi html
w2n html
** building package indices
** installing vignettes
** 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 (moveHMM)