* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘nlme’ ...
** package ‘nlme’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘gcc-13 (Debian 13.2.0-23) 13.2.0’
using Fortran compiler: ‘GNU Fortran (Debian 13.2.0-23) 13.2.0’
make[1]: Entering directory '/tmp/RtmpYW7WAw/R.INSTALL293901b2a86bc/nlme/src'
gfortran-13 -fpic -g -O2 -Wall -mtune=native -c chol.f -o chol.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c corStruct.c -o corStruct.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c gnls.c -o gnls.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c matrix.c -o matrix.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c nlOptimizer.c -o nlOptimizer.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c nlme.c -o nlme.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c nlmefit.c -o nlmefit.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c pdMat.c -o pdMat.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c pythag.c -o pythag.o
gfortran-13 -fpic -g -O2 -Wall -mtune=native -c rs.f -o rs.o
gcc-13 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o nlme.so chol.o corStruct.o gnls.o init.o matrix.o nlOptimizer.o nlme.o nlmefit.o pdMat.o pythag.o rs.o -lgfortran -lm -lquadmath -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/tmp/RtmpYW7WAw/R.INSTALL293901b2a86bc/nlme/src'
make[1]: Entering directory '/tmp/RtmpYW7WAw/R.INSTALL293901b2a86bc/nlme/src'
make[1]: Leaving directory '/tmp/RtmpYW7WAw/R.INSTALL293901b2a86bc/nlme/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-nlme/00new/nlme/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 ‘nlme’
finding HTML links ... done
ACF html
ACF.gls html
ACF.lme html
Alfalfa html
Assay html
BodyWeight html
Cefamandole html
Coef html
Covariate html
Covariate.varFunc html
Dialyzer html
Dim html
Dim.corSpatial html
Dim.corStruct html
Dim.pdMat html
Earthquake html
Extract.pdMat html
Fatigue html
Gasoline html
Glucose html
Glucose2 html
Gun html
IGF html
Initialize html
Initialize.corStruct html
Initialize.glsStruct html
Initialize.lmeStruct html
Initialize.reStruct html
Initialize.varFunc html
LDEsysMat html
Machines html
MathAchSchool html
MathAchieve html
Matrix html
Matrix.pdMat html
Matrix.reStruct html
Meat html
Milk html
Muscle html
Names html
Names.formula html
Names.pdBlocked html
Names.pdMat html
Names.reStruct html
Nitrendipene html
Oats html
Orthodont html
Ovary html
Oxboys html
Oxide html
PBG html
Phenobarb html
Pixel html
Quinidine html
Rail html
RatPupWeight html
Relaxin html
Remifentanil html
Soybean html
Spruce html
Tetracycline1 html
Tetracycline2 html
VarCorr html
Variogram html
Variogram.corExp html
Variogram.corGaus html
Variogram.corLin html
Variogram.corRatio html
Variogram.corSpatial html
Variogram.corSpher html
Variogram.default html
Variogram.gls html
Variogram.lme html
Wafer html
Wheat html
Wheat2 html
allCoef html
anova.gls html
anova.lme html
as.matrix.corStruct html
as.matrix.pdMat html
as.matrix.reStruct html
asOneFormula html
asTable html
augPred html
balancedGrouped html
bdf html
coef.corStruct html
coef.gnls html
coef.lmList html
coef.lme html
coef.modelStruct html
coef.pdMat html
coef.reStruct html
coef.varFunc html
collapse html
collapse.groupedData html
compareFits html
comparePred html
corAR1 html
corARMA html
corCAR1 html
corClasses html
corCompSymm html
corExp html
corFactor html
corFactor.corStruct html
corGaus html
corLin html
corMatrix html
corMatrix.corStruct html
corMatrix.pdMat html
corMatrix.reStruct html
corNatural html
corRatio html
corSpatial html
corSpher html
corSymm html
ergoStool html
fdHess html
fitted.glsStruct html
fitted.gnlsStruct html
fitted.lmList html
fitted.lme html
fitted.lmeStruct html
fitted.nlmeStruct html
fixed.effects html
fixef.lmList html
formula.pdBlocked html
formula.pdMat html
formula.reStruct html
gapply html
getCovariate html
getCovariate.corStruct html
getCovariate.data.frame html
getCovariate.varFunc html
getCovariateFormula html
getData html
getData.gls html
getData.lmList html
getData.lme html
getGroups html
getGroups.corStruct html
getGroups.data.frame html
getGroups.gls html
getGroups.lmList html
getGroups.lme html
getGroups.varFunc html
getGroupsFormula html
getResponse html
getResponseFormula html
getVarCov html
gls-internal html
gls html
glsControl html
glsObject html
glsStruct html
gnls html
gnlsControl html
gnlsObject html
gnlsStruct html
groupedData html
gsummary html
intervals html
intervals.gls html
intervals.lmList html
intervals.lme html
isBalanced html
isInitialized html
lmList html
lmList.groupedData html
lme html
lme.groupedData html
lme.lmList html
lmeControl html
lmeObject html
lmeStruct html
logDet html
logDet.corStruct html
logDet.pdMat html
logDet.reStruct html
logLik.corStruct html
logLik.glsStruct html
logLik.gnls html
logLik.gnlsStruct html
logLik.lmList html
logLik.lme html
logLik.lmeStruct html
logLik.reStruct html
logLik.varFunc html
model.matrix.reStruct html
needUpdate html
needUpdate.modelStruct html
nlme-deprecated html
nlme html
nlme.nlsList html
nlmeControl html
nlmeObject html
nlmeStruct html
nlsList html
nlsList.selfStart html
pairs.compareFits html
pairs.lmList html
pairs.lme html
pdBlocked html
pdClasses html
pdCompSymm html
pdConstruct html
pdConstruct.pdBlocked html
pdDiag html
pdFactor html
pdFactor.reStruct html
pdIdent html
pdLogChol html
pdMat html
pdMatrix html
pdMatrix.reStruct html
pdNatural html
pdSymm html
phenoModel html
plot.ACF html
plot.Variogram html
plot.augPred html
plot.compareFits html
plot.gls html
plot.intervals.lmList html
plot.lmList html
plot.lme html
plot.nffGroupedData html
plot.nfnGroupedData html
plot.nmGroupedData html
plot.ranef.lmList html
plot.ranef.lme html
pooledSD html
predict.gls html
predict.gnls html
predict.lmList html
predict.lme html
predict.nlme html
print.summary.pdMat html
print.varFunc html
qqnorm.gls html
qqnorm.lme html
quinModel html
random.effects html
ranef.lmList html
ranef.lme html
reStruct html
recalc html
recalc.corStruct html
recalc.modelStruct html
recalc.reStruct html
recalc.varFunc html
residuals.gls html
residuals.glsStruct html
residuals.gnlsStruct html
residuals.lmList html
residuals.lme html
residuals.lmeStruct html
residuals.nlmeStruct html
simulate.lme html
solve.pdMat html
solve.reStruct html
splitFormula html
summary.corStruct html
summary.gls html
summary.lmList html
summary.lme html
summary.modelStruct html
summary.nlsList html
summary.pdMat html
summary.varFunc html
update.modelStruct html
update.varFunc html
varClasses html
varComb html
varConstPower html
varConstProp html
varExp html
varFixed html
varFunc html
varIdent html
varPower html
varWeights html
varWeights.glsStruct html
varWeights.lmeStruct html
** building package indices
** 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 (nlme)