* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘PFIM’ ...
** this is package ‘PFIM’ version ‘8.0’
** package ‘PFIM’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
specified C++17
using C compiler: ‘gcc-16 (Debian 16.2.0-3) 16.2.0’
using C++ compiler: ‘g++-16 (Debian 16.2.0-3) 16.2.0’
using C++17
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpKKnvEh/R.INSTALLec932743b3476/PFIM/src'
g++-16 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I../inst/include -DARMA_WARN_LEVEL=1 -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 FedorovWynnAlgorithm.cpp -o FedorovWynnAlgorithm.o
g++-16 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I../inst/include -DARMA_WARN_LEVEL=1 -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 MultiplicativeAlgorithm.cpp -o MultiplicativeAlgorithm.o
g++-16 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I../inst/include -DARMA_WARN_LEVEL=1 -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 PGBOAlgorithm.cpp -o PGBOAlgorithm.o
g++-16 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I../inst/include -DARMA_WARN_LEVEL=1 -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 PSOKernel.cpp -o PSOKernel.o
g++-16 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I../inst/include -DARMA_WARN_LEVEL=1 -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
g++-16 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I../inst/include -DARMA_WARN_LEVEL=1 -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 SimplexAlgorithm.cpp -o SimplexAlgorithm.o
g++-16 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I../inst/include -DARMA_WARN_LEVEL=1 -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 compute-linalg.cpp -o compute-linalg.o
g++-16 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I../inst/include -DARMA_WARN_LEVEL=1 -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 compute-mfvar.cpp -o compute-mfvar.o
g++-16 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I../inst/include -DARMA_WARN_LEVEL=1 -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 compute-pop-fim-combo.cpp -o compute-pop-fim-combo.o
g++-16 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I../inst/include -DARMA_WARN_LEVEL=1 -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 compute-residual-error.cpp -o compute-residual-error.o
gcc-16 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I../inst/include -DARMA_WARN_LEVEL=1 -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++-16 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I../inst/include -DARMA_WARN_LEVEL=1 -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 ode-cache.cpp -o ode-cache.o
g++-16 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o PFIM.so FedorovWynnAlgorithm.o MultiplicativeAlgorithm.o PGBOAlgorithm.o PSOKernel.o RcppExports.o SimplexAlgorithm.o compute-linalg.o compute-mfvar.o compute-pop-fim-combo.o compute-residual-error.o init.o ode-cache.o -llapack -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lRblas -lgfortran -lm -latomic_asneeded -lquadmath -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpKKnvEh/R.INSTALLec932743b3476/PFIM/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpKKnvEh/R.INSTALLec932743b3476/PFIM/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpKKnvEh/R.INSTALLec932743b3476/PFIM/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-PFIM/00new/PFIM/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package ‘PFIM’
finding HTML links ... done
Additive html
Administration html
AdministrationConstraints html
Arm html
BayesianFim html
CategoricalCovariate html
CategoricalCovariateWithIOV html
Combined1 html
Combined2 html
Constant html
Covariate html
CovariateModelEquation html
CovariateTest-class html
Dcriterion html
Design html
Distribution html
Evaluation html
Exponential html
FedorovWynnAlgorithm html
FedorovWynnAlgorithm_Rcpp html
Fim html
IndividualFim html
LibraryOfModels html
LibraryOfPDModels html
LibraryOfPKModels html
Linear2BolusSingleDose_ClQV1V2 html
Linear2BolusSingleDose_kk12k21V html
Linear2BolusSteadyState_ClQV1V2tau html
Linear2BolusSteadyState_kk12k21Vtau html
Linear2FirstOrderSingleDose_kaClQV1V2 html
Linear2FirstOrderSingleDose_kakk12k21V
html
Linear2FirstOrderSteadyState_kaClQV1V2tau
html
Linear2FirstOrderSteadyState_kakk12k21Vtau
html
Linear2InfusionSingleDose_ClQV1V2 html
Linear2InfusionSingleDose_kk12k21V html
Linear2InfusionSteadyState_ClQV1V2tau html
Linear2InfusionSteadyState_kk12k21Vtau
html
LogNormal html
Model html
ModelAnalytic html
ModelAnalyticInfusion html
ModelAnalyticInfusionSteadyState html
ModelAnalyticSteadyState html
ModelError html
ModelInfusion html
ModelODE html
ModelODEBolus html
ModelODEDoseInEquations html
ModelODEDoseNotInEquations html
ModelODEInfusion html
ModelODEInfusionDoseInEquation html
ModelParameter html
MultiplicativeAlgorithm html
MultiplicativeAlgorithm_Rcpp html
Normal html
Optimization html
PFIM-package html
PFIMProject html
PGBOAlgorithm html
PSOAlgorithm html
PopulationFim html
Proportional html
Report html
SamplingTimeConstraints html
SamplingTimes html
SimplexAlgorithm html
adjustGradient html
aggregateGradientsWithCovariates html
aggregateVarianceWithCovariates html
armAdministration html
checkSamplingTimeConstraintsForMetaheuristic
html
checkValiditySamplingConstraint html
computeCovariateValue html
constraintsTableForReport html
convertPKModelAnalyticToPKModelODE html
covariateTest html
createEffectVector html
defineCovariatesData html
defineFim html
defineModelAdministration html
defineModelEquationsFromLibraryOfModel
html
defineModelType html
defineModelWrapper html
defineOptimizationAlgorithm html
definePKModel html
definePKPDModel html
ensureModelOutputNames html
evaluateAnalyticCore html
evaluateAnalyticInfusionCore html
evaluateAnalyticInfusionSteadyStateCore
html
evaluateAnalyticSteadyStateCore html
evaluateArm html
evaluateCovariatesEffects html
evaluateDesign html
evaluateErrorModelDerivatives html
evaluateFim html
evaluateInitialConditions html
evaluateModel html
evaluateModelGradient html
evaluateModelGradientCore html
evaluateModelGradientWithCovariates html
evaluateModelVariance html
evaluateModelWithCovariates html
evaluateOmegaMatrixFromCovariates html
evaluateVarianceFIM html
finiteDifferenceHessian html
fun_amoeba_Rcpp html
generateCovariatesCombination html
generateDosesCombination html
generateFimsFromConstraints html
generateReportEvaluation html
generateReportOptimization html
generateSamplingTimesCombination html
generateSamplingsFromSamplingConstraints
html
getArmConstraints html
getArmData html
getArmEvaluationGradientsMatrix html
getArmEvaluationVarianceFlat html
getCategoryOfReference html
getCorrelationMatrix html
getCovariateEffects html
getCovariateTestTables html
getDcriterion html
getDeterminant html
getEvaluationDesign html
getFim html
getFisherMatrix html
getMixtureDcriterion html
getModelErrorData html
getModelParametersData html
getNumberOfOccasionsForModel html
getOccasionsFromIOVCovariates html
getRSE html
getRealisedDcriterion html
getSE html
getSamplingData html
getShrinkage html
hasCovariates html
inferNumberOfOccasions html
modelParametersWithCovariates html
optimizeDesign html
parseCombinationName html
pdModelLibrary html
pfim-arm-constraints html
pfim-constraints-helpers html
pfim-extensions html
pfim-fim-optimizer-wiring html
pfim-registry html
pfim_cache_stats html
pfim_get_option html
pfim_list_extensions html
pfim_register_fim_type html
pfim_register_model_class html
pfim_register_optimizer html
pfim_registered_model_classes html
pfim_reset_session html
pfim_resolve_model_class html
pfim_set_option html
pgbo_optimize_Rcpp html
pkModelLibrary html
plotEvaluation html
plotEvaluationResults html
plotEvaluationSI html
plotFrequencies html
plotFrequenciesFedorovWynnAlgorithm html
plotRSE html
plotRSEFIM html
plotSE html
plotSEFIM html
plotSensitivityIndices html
plotShrinkage html
plotWeights html
plotWeightsMultiplicativeAlgorithm html
processArmEvaluationResults html
processArmEvaluationSI html
projectOf html
projectProp html
prop html
pso_optimize_Rcpp html
rebuildEvalModel html
remapOdePkLibraryEquations html
remapOdePkLibraryText html
remapPkpdLibraryEquations html
remapPkpdLibraryText html
replaceVariablesLibraryOfModels html
resolveNumberOfOccasions html
run html
s7-reexports html
saveCovariateTest html
setEvaluationFim html
setOptimalArms html
setSamplingConstraintForOptimization html
show-methods html
showFIM html
tablesForReport html
updateSamplingTimes html
usesCovariateOccasionStructure 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 (PFIM)