* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘SIMplyBee’ ...
** package ‘SIMplyBee’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-14 (Debian 14.2.0-8) 14.2.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp415SgA/R.INSTALL1b4666ebcdf2c/SIMplyBee/src'
g++-14 -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'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -DARMA_64BIT_WORD -DBOOST_DISABLE_ASSERTS -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o
g++-14 -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'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -DARMA_64BIT_WORD -DBOOST_DISABLE_ASSERTS -fpic -g -O2 -Wall -pedantic -mtune=native -c isHeterozygous.cpp -o isHeterozygous.o
g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o SIMplyBee.so RcppExports.o isHeterozygous.o -llapack -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lRblas -lgfortran -lm -lquadmath -fopenmp -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp415SgA/R.INSTALL1b4666ebcdf2c/SIMplyBee/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp415SgA/R.INSTALL1b4666ebcdf2c/SIMplyBee/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp415SgA/R.INSTALL1b4666ebcdf2c/SIMplyBee/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-SIMplyBee/00new/SIMplyBee/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package ‘SIMplyBee’
finding HTML links ... done
Colony-class html
MultiColony-class html
SIMplyBee-package html
SimParamBee html
addCastePop html
buildUp html
calcBeeGRMIbd html
calcBeeGRMIbs html
calcColonyValue html
calcInheritanceCriterion html
calcPerformanceCriterion html
calcQueensPHomBrood html
calcSelectionCriterion html
collapse html
combine html
combineBeeGametes html
combineBeeGametesHaploDiploid html
combineNULLAndPop html
createCastePop html
createColony html
createCrossPlan html
createDCA html
createMatingStationDCA html
createMultiColony html
cross html
downsize html
downsizePFun html
editCsdLocus html
getAa html
getBv html
getCaste html
getCasteId html
getCastePop html
getCasteSex html
getCsdAlleles html
getCsdGeno html
getDd html
getEvents html
getGv html
getIbdHaplo html
getId html
getLocation html
getMisc html
getPheno html
getPooledGeno html
getQtlGeno html
getQtlHaplo html
getQueenAge html
getQueenYearOfBirth html
getSegSiteGeno html
getSegSiteHaplo html
getSnpGeno html
getSnpHaplo html
hasCollapsed html
hasSplit html
hasSuperseded html
hasSwarmed html
isCaste html
isCsdActive html
isCsdHeterozygous html
isDronesPresent html
isEmpty html
isFathersPresent html
isGenoHeterozygous html
isNULLColonies html
isProductive html
isQueenPresent html
isSimParamBee html
isVirginQueensPresent html
isWorkersPresent html
mapCasteToColonyValue html
mapLoci html
nCaste html
nColonies html
nCsdAlleles html
nDronesFun html
nFathersFun html
nVirginQueensFun html
nWorkersFun html
pullCastePop html
pullColonies html
pullDroneGroupsFromDCA html
pullInd html
rcircle html
reQueen html
reduceDroneGeno html
reduceDroneHaplo html
removeCastePop html
removeColonies html
replaceCastePop html
resetEvents html
selectColonies html
setLocation html
setMisc html
setQueensYearOfBirth html
simulateHoneyBeeGenomes html
split html
splitPFun html
supersede html
swarm html
swarmPFun html
*** copying figures
** 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 (SIMplyBee)