* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘mets’ ...
** this is package ‘mets’ version ‘1.3.11’
** package ‘mets’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘gcc-15 (Debian 15.3.0-1) 15.3.0’
using Fortran compiler: ‘GNU Fortran (Debian 15.3.0-1) 15.3.0’
using C++ compiler: ‘g++-15 (Debian 15.3.0-1) 15.3.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpUmyjBg/R.INSTALL6de986241e531/mets/src'
g++-15 -std=gnu++20 -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/mvtnorm/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -I../inst/include -DNDEBUG -DARMA_DONT_USE_OPENMP -DARMA_NO_DEBUG -DARMA_WARN_LEVEL=1 -DRCPP_NO_MODULES -DRCPP_NO_RTTI -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o
g++-15 -std=gnu++20 -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/mvtnorm/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -I../inst/include -DNDEBUG -DARMA_DONT_USE_OPENMP -DARMA_NO_DEBUG -DARMA_WARN_LEVEL=1 -DRCPP_NO_MODULES -DRCPP_NO_RTTI -fpic -g -O2 -Wall -pedantic -mtune=native -c aalenfrailty.cpp -o aalenfrailty.o
g++-15 -std=gnu++20 -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/mvtnorm/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -I../inst/include -DNDEBUG -DARMA_DONT_USE_OPENMP -DARMA_NO_DEBUG -DARMA_WARN_LEVEL=1 -DRCPP_NO_MODULES -DRCPP_NO_RTTI -fpic -g -O2 -Wall -pedantic -mtune=native -c apply.cpp -o apply.o
g++-15 -std=gnu++20 -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/mvtnorm/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -I../inst/include -DNDEBUG -DARMA_DONT_USE_OPENMP -DARMA_NO_DEBUG -DARMA_WARN_LEVEL=1 -DRCPP_NO_MODULES -DRCPP_NO_RTTI -fpic -g -O2 -Wall -pedantic -mtune=native -c binomial-twostage.cpp -o binomial-twostage.o
g++-15 -std=gnu++20 -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/mvtnorm/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -I../inst/include -DNDEBUG -DARMA_DONT_USE_OPENMP -DARMA_NO_DEBUG -DARMA_WARN_LEVEL=1 -DRCPP_NO_MODULES -DRCPP_NO_RTTI -fpic -g -O2 -Wall -pedantic -mtune=native -c biprobit.cpp -o biprobit.o
g++-15 -std=gnu++20 -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/mvtnorm/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -I../inst/include -DNDEBUG -DARMA_DONT_USE_OPENMP -DARMA_NO_DEBUG -DARMA_WARN_LEVEL=1 -DRCPP_NO_MODULES -DRCPP_NO_RTTI -fpic -g -O2 -Wall -pedantic -mtune=native -c claytonoakes.cpp -o claytonoakes.o
g++-15 -std=gnu++20 -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/mvtnorm/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -I../inst/include -DNDEBUG -DARMA_DONT_USE_OPENMP -DARMA_NO_DEBUG -DARMA_WARN_LEVEL=1 -DRCPP_NO_MODULES -DRCPP_NO_RTTI -fpic -g -O2 -Wall -pedantic -mtune=native -c clusterindex.cpp -o clusterindex.o
g++-15 -std=gnu++20 -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/mvtnorm/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -I../inst/include -DNDEBUG -DARMA_DONT_USE_OPENMP -DARMA_NO_DEBUG -DARMA_WARN_LEVEL=1 -DRCPP_NO_MODULES -DRCPP_NO_RTTI -fpic -g -O2 -Wall -pedantic -mtune=native -c cor.cpp -o cor.o
g++-15 -std=gnu++20 -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/mvtnorm/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -I../inst/include -DNDEBUG -DARMA_DONT_USE_OPENMP -DARMA_NO_DEBUG -DARMA_WARN_LEVEL=1 -DRCPP_NO_MODULES -DRCPP_NO_RTTI -fpic -g -O2 -Wall -pedantic -mtune=native -c fastcox.cpp -o fastcox.o
g++-15 -std=gnu++20 -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/mvtnorm/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -I../inst/include -DNDEBUG -DARMA_DONT_USE_OPENMP -DARMA_NO_DEBUG -DARMA_WARN_LEVEL=1 -DRCPP_NO_MODULES -DRCPP_NO_RTTI -fpic -g -O2 -Wall -pedantic -mtune=native -c mvn.cpp -o mvn.o
g++-15 -std=gnu++20 -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/mvtnorm/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -I../inst/include -DNDEBUG -DARMA_DONT_USE_OPENMP -DARMA_NO_DEBUG -DARMA_WARN_LEVEL=1 -DRCPP_NO_MODULES -DRCPP_NO_RTTI -fpic -g -O2 -Wall -pedantic -mtune=native -c pch.cpp -o pch.o
g++-15 -std=gnu++20 -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/mvtnorm/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -I../inst/include -DNDEBUG -DARMA_DONT_USE_OPENMP -DARMA_NO_DEBUG -DARMA_WARN_LEVEL=1 -DRCPP_NO_MODULES -DRCPP_NO_RTTI -fpic -g -O2 -Wall -pedantic -mtune=native -c prop-odd.cpp -o prop-odd.o
gcc-15 -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/mvtnorm/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c randomF77.c -o randomF77.o
g++-15 -std=gnu++20 -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/mvtnorm/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -I../inst/include -DNDEBUG -DARMA_DONT_USE_OPENMP -DARMA_NO_DEBUG -DARMA_WARN_LEVEL=1 -DRCPP_NO_MODULES -DRCPP_NO_RTTI -fpic -g -O2 -Wall -pedantic -mtune=native -c sim-tools.cpp -o sim-tools.o
g++-15 -std=gnu++20 -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/mvtnorm/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -I../inst/include -DNDEBUG -DARMA_DONT_USE_OPENMP -DARMA_NO_DEBUG -DARMA_WARN_LEVEL=1 -DRCPP_NO_MODULES -DRCPP_NO_RTTI -fpic -g -O2 -Wall -pedantic -mtune=native -c survival-twostage.cpp -o survival-twostage.o
survival-twostage.cpp: In function ‘SEXPREC* twostageloglikeRV(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)’:
survival-twostage.cpp:2076:57: warning: variable ‘sdj’ set but not used [-Wunused-but-set-variable]
2076 | double dl1,dl2,ll1,ll2,ll=1,Li,Lk,diff=0,loglikecont=0,sdj=0;
| ^~~
survival-twostage.cpp: In function ‘SEXPREC* survivalloglikeRVpairs(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)’:
survival-twostage.cpp:2761:21: warning: variable ‘thetak’ set but not used [-Wunused-but-set-variable]
2761 | double llt=1,ssf=0,thetak=0;
| ^~~~~~
g++-15 -std=gnu++20 -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/mvtnorm/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -I../inst/include -DNDEBUG -DARMA_DONT_USE_OPENMP -DARMA_NO_DEBUG -DARMA_WARN_LEVEL=1 -DRCPP_NO_MODULES -DRCPP_NO_RTTI -fpic -g -O2 -Wall -pedantic -mtune=native -c tools.cpp -o tools.o
gfortran-15 -fpic -g -O2 -Wall -pedantic -mtune=native -c tvpack.f -o tvpack.o
g++-15 -std=gnu++20 -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/mvtnorm/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -I../inst/include -DNDEBUG -DARMA_DONT_USE_OPENMP -DARMA_NO_DEBUG -DARMA_WARN_LEVEL=1 -DRCPP_NO_MODULES -DRCPP_NO_RTTI -fpic -g -O2 -Wall -pedantic -mtune=native -c weibull.cpp -o weibull.o
g++-15 -std=gnu++20 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o mets.so RcppExports.o aalenfrailty.o apply.o binomial-twostage.o biprobit.o claytonoakes.o clusterindex.o cor.o fastcox.o mvn.o pch.o prop-odd.o randomF77.o sim-tools.o survival-twostage.o tools.o tvpack.o weibull.o -fopenmp -llapack -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lRblas -lgfortran -lm -lquadmath -lgfortran -lm -lquadmath -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpUmyjBg/R.INSTALL6de986241e531/mets/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpUmyjBg/R.INSTALL6de986241e531/mets/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpUmyjBg/R.INSTALL6de986241e531/mets/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-mets/00new/mets/libs
** R
** data
** demo
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package ‘mets’
finding HTML links ... done
ACTG175 html
CPH_HPN_CRBSI html
ClaytonOakes html
Dbvn html
Event html
Grandom_cif html
IC.binreg html
IC.phreg html
LinSpline html
TRACE html
WA_recurrent html
WA_reg html
aalenMets html
bicomprisk html
binomial_twostage html
binreg html
binregATE html
binregCasewise html
binregG html
binregRatio html
binregStrata html
binregTSR html
binreg_IPTW html
biprobit html
blocksample html
bmt html
bptwin html
brier_binreg html
calgb8923 html
casewise html
casewise_bin html
cif-nonpar html
cif html
cif_yearslost html
cifreg html
cifregFG html
cluster_index html
coarse_clust html
concordanceCor html
cor_cif html
count_history html
cumoddsreg html
daggregate html
dby html
dcor html
dcut html
dermalridges html
dermalridgesMZ html
diabetes html
divide_conquer html
dlag html
dprint html
dreg html
drelevel html
drop.specials html
dsort html
dspline html
dtable html
dtransform html
estimate.binregCV html
event_split html
event_split2 html
eventpois html
extendCums html
familyclusterWithProbands_index html
familycluster_index html
fast.approx html
fast.cluster html
fast.pattern html
fast.reshape html
faster.reshape html
folds html
force.same.cens html
gof.phreg html
gofM_phreg html
gofZ_phreg html
grouptable html
haplo html
haplo_surv_discrete html
hfactioncpx12 html
iidBaseline html
ilap html
interval_logitsurv_discrete html
ipw html
ipw2 html
jumptimes html
km html
lifecourse html
lifetable.matrix html
logitSurv html
mediatorSurv html
medweight html
melanoma html
mena html
mets-package html
mets-simulation html
mets.options html
migr html
mlogit html
multcif html
np html
phreg-helpers html
phreg html
phreg_IPTW html
phreg_rct html
phreg_weibull html
plack_cif html
plot.phreg html
plot_twin html
pmvn html
predict.mlogit html
predict.phreg html
print.casewise html
print.summary_binregCV_multi html
prob_exceed_recurrent html
prt html
random_cif html
ratioATE html
rchaz html
rchazl html
rcrisk html
recreg html
recregIPCW html
recurrent_marginal html
reexports html
resmeanATE html
resmeanIPCW html
resmean_phreg html
rweibullcox html
sim_ClaytonOakes html
sim_ClaytonOakesWei html
sim_GLcox html
sim_cif html
sim_multistate html
sim_multistateII html
sim_phreg html
sim_phregs html
sim_recurrent html
sim_recurrentII html
sim_recurrentTS html
sim_recurrent_ts html
strata-numeric html
summary.binregCV html
summary.binregCV_list html
summary.cor html
summaryGLM html
summaryTimeobject html
surv_boxarea html
survival-helpers html
survivalG html
survival_twostage html
test_casewise html
test_conc html
test_logrankRecurrent html
test_marginalMean html
tetrachoric html
tie_breaker html
ttpd html
twin-design html
twinbmi html
twinlm html
twinsim html
twinstut html
twostageMLE html
twostageREC 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 (mets)