* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘fishmethods’ ...
** package ‘fishmethods’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-13 (Debian 13.2.0-13) 13.2.0’
make[1]: Entering directory '/tmp/RtmpAeOqSQ/R.INSTALL3d701330e52af4/fishmethods/src'
g++-13 -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/TMB/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c init_dummy_file.cpp -o init_dummy_file.o
(cd TMB; /home/hornik/tmp/R.check/r-patched-gcc/Work/build/bin/Rscript \
--no-save --no-restore compile.R '')
Note: Using Makevars in /home/hornik/.R/Makevars-gcc
using C++ compiler: ‘g++-13 (Debian 13.2.0-13) 13.2.0’
make[2]: Entering directory '/tmp/RtmpAeOqSQ/R.INSTALL3d701330e52af4/fishmethods/src/TMB'
g++-13 -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/TMB/include" -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppEigen/include" -DTMB_EIGEN_DISABLE_WARNINGS -DTMB_LIB_INIT=R_init_fishmethods_TMBExports -DCPPAD_FRAMEWORK -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/TMB/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c fishmethods_TMBExports.cpp -o fishmethods_TMBExports.o
g++-13 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o fishmethods_TMBExports.so fishmethods_TMBExports.o -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[2]: Leaving directory '/tmp/RtmpAeOqSQ/R.INSTALL3d701330e52af4/fishmethods/src/TMB'
make[2]: Entering directory '/tmp/RtmpAeOqSQ/R.INSTALL3d701330e52af4/fishmethods/src/TMB'
make[2]: Leaving directory '/tmp/RtmpAeOqSQ/R.INSTALL3d701330e52af4/fishmethods/src/TMB'
[1] TRUE
g++-13 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o fishmethods.so init_dummy_file.o -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/tmp/RtmpAeOqSQ/R.INSTALL3d701330e52af4/fishmethods/src'
make[1]: Entering directory '/tmp/RtmpAeOqSQ/R.INSTALL3d701330e52af4/fishmethods/src'
make[1]: Leaving directory '/tmp/RtmpAeOqSQ/R.INSTALL3d701330e52af4/fishmethods/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-fishmethods/00new/fishmethods/libs
** R
** data
*** moving datasets to lazyload DB
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package ‘fishmethods’
finding HTML links ... done
AtkaMack html
Gerking html
Hightower html
Hoenig html
Jensen html
Jiang html
Kimura html
M.empirical html
P.donacina html
Shepherd html
agesurv html
agesurvcl html
alk html
alkD html
alkdata html
alkprop html
alkss html
astrocalc4r html
bheq html
bhnoneq html
bonito html
bt.log html
buffalo html
catch html
catch.select html
catchmsy html
catchsurvey html
clus.lf html
clus.mean html
clus.rho html
clus.rho.g html
clus.str.lf html
clus.t.test html
clus.vb.fit html
codcluslen html
codstrcluslen html
combinevar html
compare.lrt.plus html
compare2 html
convmort html
counts html
cowcod html
cpuekapp html
darter html
dbsra html
deltadist html
deplet html
dlproj html
ep.data html
ep_growth html
epr html
fm_checkdesign html
fm_model_avg html
fm_telemetry html
fpc html
gap html
goosefish html
grotag html
grotagplus html
growhamp html
growth html
growthResid html
growthTraject html
growth_sel html
growthlrt html
growthlrt.plus html
growthmultifit html
growtrans html
haddock html
irm_cr html
irm_h html
kappenman html
lifetable html
lingcod html
maki html
mature html
menhaden html
mort.al html
mrN.single html
nshrimp html
opt_slot html
opt_trophy html
pgen html
pinfish html
plot.grotagplus html
powertrend html
print.grotagplus html
pwpop html
remp html
rig html
rockbass html
sblen html
sbotos html
sbpr html
schnabel html
simulus html
slca html
sole html
sr html
striper html
surveyfit html
surveyref html
tag_model_avg html
tanaka html
trout html
vbfr html
wolffish html
yellowtail html
ypr html
zt 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 (fishmethods)