* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘jomo’ ...
** package ‘jomo’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘gcc-13 (Debian 13.2.0-23) 13.2.0’
make[1]: Entering directory '/tmp/Rtmpsr4fMC/R.INSTALL19bbb6337dc852/jomo/src'
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c jomo1C.c -o jomo1C.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c jomo1ranC.c -o jomo1ranC.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c jomo1ranhrC.c -o jomo1ranhrC.o
jomo1ranhrC.c: In function ‘jomo1ranhrC’:
jomo1ranhrC.c:629:85: warning: ‘aj’ may be used uninitialized [-Wmaybe-uninitialized]
629 | newlogLH=newlogLH*(-0.5)-(aj+JY+1)*log(detom)/2;
| ~~^~~
jomo1ranhrC.c:19:132: note: ‘aj’ was declared here
19 | double *cumclus, *allinvomega,gamma,eta,dx,u_new,precision, *invgamma, *invA, *Gammapr, *Gammastar,u_m,con2,deriv2,u_prop, lambda, aj, *listh8, *listomega;
| ^~
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c jomo1ranhrsmcC.c -o jomo1ranhrsmcC.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c jomo1ransmcC.c -o jomo1ransmcC.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c jomo1smcC.c -o jomo1smcC.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c jomo2comC.c -o jomo2comC.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c jomo2hrC.c -o jomo2hrC.o
jomo2hrC.c: In function ‘jomo2hrC’:
jomo2hrC.c:932:85: warning: ‘aj’ may be used uninitialized [-Wmaybe-uninitialized]
932 | newlogLH=newlogLH*(-0.5)-(aj+JY+1)*log(detom)/2;
| ~~^~~
jomo2hrC.c:19:132: note: ‘aj’ was declared here
19 | double *cumclus, *allinvomega,gamma,eta,dx,u_new,precision, *invgamma, *invA, *Gammapr, *Gammastar,u_m,con2,deriv2,u_prop, lambda, aj,*missing2, *Y2red, *X2red, *fixomega2;
| ^~
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c jomo2hrsmcC.c -o jomo2hrsmcC.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c jomo2smcC.c -o jomo2smcC.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c jomo_init.c -o jomo_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 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c pdflib.c -o pdflib.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c wishart.c -o wishart.o
gcc-13 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o jomo.so jomo1C.o jomo1ranC.o jomo1ranhrC.o jomo1ranhrsmcC.o jomo1ransmcC.o jomo1smcC.o jomo2comC.o jomo2hrC.o jomo2hrsmcC.o jomo2smcC.o jomo_init.o pdflib.o wishart.o -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/tmp/Rtmpsr4fMC/R.INSTALL19bbb6337dc852/jomo/src'
make[1]: Entering directory '/tmp/Rtmpsr4fMC/R.INSTALL19bbb6337dc852/jomo/src'
make[1]: Leaving directory '/tmp/Rtmpsr4fMC/R.INSTALL19bbb6337dc852/jomo/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-jomo/00new/jomo/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 ‘jomo’
finding HTML links ... done
ExamScores html
JSPmiss html
cldata html
jomo.MCMCchain html
jomo html
jomo.clmm.MCMCchain html
jomo.clmm html
jomo.coxph.MCMCchain html
jomo.coxph html
jomo.glm.MCMCchain html
jomo.glm html
jomo.glmer.MCMCchain html
jomo.glmer html
jomo.lm.MCMCchain html
jomo.lm html
jomo.lmer.MCMCchain html
jomo.lmer html
jomo.polr.MCMCchain html
jomo.polr html
jomo.smc.MCMCchain html
jomo.smc html
jomo1.MCMCchain html
jomo1 html
jomo1cat.MCMCchain html
jomo1cat html
jomo1con.MCMCchain html
jomo1con html
jomo1mix.MCMCchain html
jomo1mix html
jomo1ran.MCMCchain html
jomo1ran html
jomo1rancat.MCMCchain html
jomo1rancat html
jomo1rancathr.MCMCchain html
jomo1rancathr html
jomo1rancon.MCMCchain html
jomo1rancon html
jomo1ranconhr.MCMCchain html
jomo1ranconhr html
jomo1ranmix.MCMCchain html
jomo1ranmix html
jomo1ranmixhr.MCMCchain html
jomo1ranmixhr html
jomo2.MCMCchain html
jomo2 html
jomo2com.MCMCchain html
jomo2com html
jomo2hr.MCMCchain html
jomo2hr html
sldata html
surdata html
tldata 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 (jomo)