* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘dynr’ ...
** package ‘dynr’ successfully unpacked and MD5 sums checked
** using staged installation
checking for gsl-config... /usr/bin/gsl-config
C flags for GSL are -I/usr/include
Libs for GSL are -L/usr/lib/x86_64-linux-gnu -lgsl -lgslcblas -lm
configure: creating ./config.status
config.status: creating src/Makevars
** libs
using C compiler: ‘gcc-13 (Debian 13.2.0-13) 13.2.0’
make[1]: Entering directory '/tmp/Rtmpv6qNFp/R.INSTALL3ef8c824847449/dynr/src'
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c adaodesolver.c -o adaodesolver.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c brekfis.c -o brekfis.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ekf.c -o ekf.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c estimation.c -o estimation.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c general.c -o general.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c glue.c -o glue.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c mainR.c -o mainR.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c math_function.c -o math_function.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c model.c -o model.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c nldrmd.c -o nldrmd.o
In file included from /usr/include/string.h:535,
from nldrmd.c:25:
In function ‘memset’,
inlined from ‘nldrmd_minimize_’ at nldrmd.c:205:4:
/usr/include/x86_64-linux-gnu/bits/string_fortified.h:59:10: warning: ‘__builtin_memset’ specified bound between 18446744056529682432 and 18446744073709551608 exceeds maximum object size 9223372036854775807 [-Wstringop-overflow=]
59 | return __builtin___memset_chk (__dest, __ch, __len,
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
60 | __glibc_objsize0 (__dest));
| ~~~~~~~~~~~~~~~~~~~~~~~~~~
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c numeric_derivatives.c -o numeric_derivatives.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c optimize.c -o optimize.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c options.c -o options.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c print_function.c -o print_function.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c qsort_r.c -o qsort_r.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c redblack.c -o redblack.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c sbplx.c -o sbplx.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c slsqp.c -o slsqp.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c stop.c -o stop.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c timer.c -o timer.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c wrappernegloglike.c -o wrappernegloglike.o
gcc-13 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o dynr.so adaodesolver.o brekfis.o ekf.o estimation.o general.o glue.o mainR.o math_function.o model.o nldrmd.o numeric_derivatives.o optimize.o options.o print_function.o qsort_r.o redblack.o sbplx.o slsqp.o stop.o timer.o wrappernegloglike.o -L/usr/lib/x86_64-linux-gnu -lgsl -lgslcblas -lm -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/tmp/Rtmpv6qNFp/R.INSTALL3ef8c824847449/dynr/src'
make[1]: Entering directory '/tmp/Rtmpv6qNFp/R.INSTALL3ef8c824847449/dynr/src'
make[1]: Leaving directory '/tmp/Rtmpv6qNFp/R.INSTALL3ef8c824847449/dynr/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-dynr/00new/dynr/libs
** R
** data
*** moving datasets to lazyload DB
** demo
** inst
** byte-compile and prepare package for lazy loading
Creating a generic function for ‘diag’ from package ‘base’ in package ‘dynr’
** help
*** installing help indices
converting help for package ‘dynr’
finding HTML links ... done
EMG html
EMGsim html
ExpandRandomAsLVModel html
LinearOsc html
LogisticSetPointSDE html
NonlinearDFAsim html
Oscillator html
Outliers html
PFAsim html
PPsim html
RSPPsim html
TrueInit_Y14 html
VARsim html
autoplot.dynrTaste html
coef.dynrCook html
confint.dynrCook html
diag-character-method html
dynr-package html
dynr.config html
dynr.cook html
finding level-2 HTML links ... done
dynr.data html
dynr.flowField html
dynr.ggplot html
dynr.ldl html
dynr.mi html
dynr.model html
dynr.plotFreq html
dynr.taste html
dynr.taste2 html
dynr.trajectory html
dynr.version html
dynrCook-class html
dynrDynamics-class html
dynrInitial-class html
dynrMeasurement-class html
dynrModel-class html
dynrNoise-class html
dynrRecipe-class html
dynrRegimes-class html
dynrTrans-class html
getdx html
internalModelPrep html
logLik.dynrCook html
names-dynrCook-method html
names-dynrModel-method html
nobs.dynrCook html
nobs.dynrModel html
oscData html
plot.dynrCook html
plotFormula html
plotGCV html
predict.dynrModel html
prep.formulaDynamics html
prep.initial html
prep.loadings html
prep.matrixDynamics html
prep.measurement html
prep.noise html
prep.regimes html
prep.tfun html
printex html
summary.dynrCook html
theta_plot html
vcov.dynrCook html
vdpData 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 (dynr)