Install log for 'mombf'

* installing *source* package ‘mombf’ ...
** this is package ‘mombf’ version ‘3.5.4’
** package ‘mombf’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
specified C++17
using C++ compiler: ‘g++ (GCC) 16.1.1 20260515 (Red Hat 16.1.1-2)’
using C++17
make[1]: Entering directory '/data/localhost/ripley/R/packages/tests-devel/mombf/src'
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG  -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include    -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c Polynomial.cpp -o Polynomial.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG  -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include    -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c PolynomialRootFinder.cpp -o PolynomialRootFinder.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG  -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include    -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG  -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include    -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c covariancemat.cpp -o covariancemat.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG  -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include    -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c crossprodmat.cpp -o crossprodmat.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG  -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include    -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c cstat.cpp -o cstat.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG  -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include    -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c ggm.cpp -o ggm.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG  -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include    -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c glm.cpp -o glm.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG  -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include    -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c mixtures.cpp -o mixtures.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG  -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include    -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c modelSel_regression.cpp -o modelSel_regression.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG  -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include    -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c modselFunction.cpp -o modselFunction.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG  -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include    -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c modselIntegrals.cpp -o modselIntegrals.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG  -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include    -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c nlpMarg.cpp -o nlpMarg.o
modelSel_regression.cpp: In function ‘void loglnegHessSkewNormUniv(int, double*, double*, int*, int*, int*, double*, double*, double*, int*)’:
modelSel_regression.cpp:5236:92: warning: variable ‘y0Wsy0’ set but not used [-Wunused-but-set-variable=]
 5236 |   double sigma, alphat, alpha, w, w1, w2, ws1, ws2, wss1, wss2, *y0, *Wy0, *Wsy0, y0Wy0=0, y0Wsy0=0, y0Wssy0=0;
      |                                                                                            ^~~~~~
modelSel_regression.cpp: In function ‘double normalidMarginalKC(int*, int*, marginalPars*)’:
modelSel_regression.cpp:6423:48: warning: variable ‘singlevarcount’ set but not used [-Wunused-but-set-variable=]
 6423 |   int i, *isgroup=(*pars).isgroup, varingroup, singlevarcount=0;
      |                                                ^~~~~~~~~~~~~~
modselFunction.cpp: In member function ‘double modselFunction::laplaceapprox(double*, double*, double**, double**, bool, std::map<std::__cxx11::basic_string<char>, double*>*)’:
modselFunction.cpp:826:33: warning: ‘mycholH’ may be used uninitialized [-Wmaybe-uninitialized]
  826 |   if (cholH== NULL) free_dmatrix(mycholH, 1,this->thlength,1,this->thlength);
      |                     ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
modselFunction.cpp:798:26: note: ‘mycholH’ was declared here
  798 |   double ans, logdetH, **mycholH;
      |                          ^~~~~~~
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG  -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I'/data/localhost/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include    -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c survival.cpp -o survival.o
survival.cpp: In function ‘void negloglnormalAFThess(double**, double*, int*, int*, marginalPars*, std::map<std::__cxx11::basic_string<char>, double*>*)’:
survival.cpp:125:141: warning: variable ‘sumD’ set but not used [-Wunused-but-set-variable=]
  125 |   double rho= th[*thlength -1], exprho, *y= (*pars).y, *x= (*pars).x, *ytXuncens= (*pars).ytXuncens, *res, *pnormres, ytres, *sumy2obs, *D, sumD=0, sumy2D=0, xyD, r;
      |                                                                                                                                             ^~~~
survival.cpp: In function ‘void anegloglnormalAFThess(double**, double*, int*, int*, marginalPars*, std::map<std::__cxx11::basic_string<char>, double*>*)’:
survival.cpp:365:141: warning: variable ‘sumD’ set but not used [-Wunused-but-set-variable=]
  365 |   double rho= th[*thlength -1], exprho, *y= (*pars).y, *x= (*pars).x, *ytXuncens= (*pars).ytXuncens, *res, *pnormres, ytres, *sumy2obs, *D, sumD=0, sumy2D=0, xyD, r;
      |                                                                                                                                             ^~~~
g++ -std=gnu++17 -shared -L/usr/local/lib64 -o mombf.so Polynomial.o PolynomialRootFinder.o RcppExports.o covariancemat.o crossprodmat.o cstat.o ggm.o glm.o mixtures.o modelSel_regression.o modselFunction.o modselIntegrals.o nlpMarg.o survival.o -llapack -L/data/localhost/ripley/R/R-devel/lib -lRblas -lgfortran -lm -latomic_asneeded -lquadmath
make[1]: Leaving directory '/data/localhost/ripley/R/packages/tests-devel/mombf/src'
make[1]: Entering directory '/data/localhost/ripley/R/packages/tests-devel/mombf/src'
make[1]: Leaving directory '/data/localhost/ripley/R/packages/tests-devel/mombf/src'
installing to /data/localhost/ripley/R/packages/tests-devel/mombf.Rcheck/00LOCK-mombf/00new/mombf/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** 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 (mombf)