Install log for 'hdpGLM'

* installing to library ‘/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages’
* installing *source* package ‘hdpGLM’ ...
** this is package ‘hdpGLM’ version ‘1.0.4’
** package ‘hdpGLM’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘Debian clang version 19.1.7 (3+b2)’
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpTxcmh2/R.INSTALL2fede64053121d/hdpGLM/src'
clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -Wno-missing-template-arg-list-after-template-kw -Wdeprecated-literal-operator  -c RcppExports.cpp -o RcppExports.o
clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -Wno-missing-template-arg-list-after-template-kw -Wdeprecated-literal-operator  -c src_dpGLM.cpp -o src_dpGLM.o
clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -Wno-missing-template-arg-list-after-template-kw -Wdeprecated-literal-operator  -c src_gibbs_gaussian.cpp -o src_gibbs_gaussian.o
src_gibbs_gaussian.cpp:93:7: warning: unused variable 'Dw' [-Wunused-variable]
   93 |   int Dw = W.n_cols - 1;
      |       ^~
1 warning generated.
clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -Wno-missing-template-arg-list-after-template-kw -Wdeprecated-literal-operator  -c src_hdpGLM.cpp -o src_hdpGLM.o
src_hdpGLM.cpp:102:45: warning: 'from<unsigned int, arma::mtOp<unsigned int, arma::mtGlue<unsigned int, arma::mtOp<unsigned int, arma::subview_col<double>, arma::op_rel_eq>, arma::mtOp<unsigned int, arma::subview_col<double>, arma::op_rel_eq>, arma::glue_rel_and>, arma::op_find_simple>>' is deprecated: replace conv_to<...>::from(X) with as_scalar(X) [-Wdeprecated-declarations]
  102 |       int idx_k_active_in_j = conv_to<int>::from( find(theta.col(0) == Zjstar(i) && theta.col(1) == j) ); 
      |                                             ^
/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppArmadillo/include/current/armadillo_bits/fn_conv_to.hpp:33:5: note: 'from<unsigned int, arma::mtOp<unsigned int, arma::mtGlue<unsigned int, arma::mtOp<unsigned int, arma::subview_col<double>, arma::op_rel_eq>, arma::mtOp<unsigned int, arma::subview_col<double>, arma::op_rel_eq>, arma::glue_rel_and>, arma::op_find_simple>>' has been explicitly marked deprecated here
   33 |   [[deprecated("replace conv_to<...>::from(X) with as_scalar(X)")]] inline static out_eT from(const Base<in_eT, T1>& in, const typename arma_not_cx<in_eT>::result* junk = nullptr);
      |     ^
1 warning generated.
clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -Wno-missing-template-arg-list-after-template-kw -Wdeprecated-literal-operator  -c src_hmc.cpp -o src_hmc.o
clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -Wno-missing-template-arg-list-after-template-kw -Wdeprecated-literal-operator  -c src_hmc_binomial.cpp -o src_hmc_binomial.o
src_hmc_binomial.cpp:40:7: warning: unused variable 'n' [-Wunused-variable]
   40 |   int n                 = Xk.n_rows;
      |       ^
src_hmc_binomial.cpp:64:7: warning: unused variable 'ncols' [-Wunused-variable]
   64 |   int ncols = Sigma_beta.n_cols;
      |       ^~~~~
2 warnings generated.
clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -Wno-missing-template-arg-list-after-template-kw -Wdeprecated-literal-operator  -c src_hmc_multinomial.cpp -o src_hmc_multinomial.o
clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -Wno-missing-template-arg-list-after-template-kw -Wdeprecated-literal-operator  -c src_pi_z_update.cpp -o src_pi_z_update.o
src_pi_z_update.cpp:53:40: warning: 'from<unsigned int, arma::mtOp<unsigned int, arma::mtOp<unsigned int, arma::subview_col<double>, arma::op_rel_eq>, arma::op_find_simple>>' is deprecated: replace conv_to<...>::from(X) with as_scalar(X) [-Wdeprecated-declarations]
   53 |     int          idx_k = conv_to<int>::from( find(theta.col(0)==k+1) );
      |                                        ^
/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppArmadillo/include/current/armadillo_bits/fn_conv_to.hpp:33:5: note: 'from<unsigned int, arma::mtOp<unsigned int, arma::mtOp<unsigned int, arma::subview_col<double>, arma::op_rel_eq>, arma::op_find_simple>>' has been explicitly marked deprecated here
   33 |   [[deprecated("replace conv_to<...>::from(X) with as_scalar(X)")]] inline static out_eT from(const Base<in_eT, T1>& in, const typename arma_not_cx<in_eT>::result* junk = nullptr);
      |     ^
src_pi_z_update.cpp:141:37: warning: 'from<unsigned int, arma::mtOp<unsigned int, arma::mtGlue<unsigned int, arma::mtOp<unsigned int, arma::subview_col<double>, arma::op_rel_eq>, arma::mtOp<unsigned int, arma::subview_col<double>, arma::op_rel_eq>, arma::glue_rel_and>, arma::op_find_simple>>' is deprecated: replace conv_to<...>::from(X) with as_scalar(X) [-Wdeprecated-declarations]
  141 |       int    idx_jk = conv_to<int>::from( find(theta.col(0)==k && theta.col(1)==j) );
      |                                     ^
/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppArmadillo/include/current/armadillo_bits/fn_conv_to.hpp:33:5: note: 'from<unsigned int, arma::mtOp<unsigned int, arma::mtGlue<unsigned int, arma::mtOp<unsigned int, arma::subview_col<double>, arma::op_rel_eq>, arma::mtOp<unsigned int, arma::subview_col<double>, arma::op_rel_eq>, arma::glue_rel_and>, arma::op_find_simple>>' has been explicitly marked deprecated here
   33 |   [[deprecated("replace conv_to<...>::from(X) with as_scalar(X)")]] inline static out_eT from(const Base<in_eT, T1>& in, const typename arma_not_cx<in_eT>::result* junk = nullptr);
      |     ^
src_pi_z_update.cpp:155:36: warning: 'from<double, arma::eOp<arma::Col<double>, arma::eop_scalar_times>>' is deprecated: replace conv_to<...>::from(X) with as_scalar(X) [-Wdeprecated-declarations]
  155 |       phii(k-1) = conv_to<double>::from(pi(k-1, j-1) * pyi);
      |                                    ^
/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppArmadillo/include/current/armadillo_bits/fn_conv_to.hpp:33:5: note: 'from<double, arma::eOp<arma::Col<double>, arma::eop_scalar_times>>' has been explicitly marked deprecated here
   33 |   [[deprecated("replace conv_to<...>::from(X) with as_scalar(X)")]] inline static out_eT from(const Base<in_eT, T1>& in, const typename arma_not_cx<in_eT>::result* junk = nullptr);
      |     ^
src_pi_z_update.cpp:130:22: warning: unused variable 'J' [-Wunused-variable]
  130 |   int                J = conv_to<colvec>::from( unique(theta.col(1)) ).n_rows;
      |                      ^
4 warnings generated.
clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -Wno-missing-template-arg-list-after-template-kw -Wdeprecated-literal-operator  -c src_utils.cpp -o src_utils.o
clang++-19 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-devel-clang/Work/build/lib -Wl,-O1 -o hdpGLM.so RcppExports.o src_dpGLM.o src_gibbs_gaussian.o src_hdpGLM.o src_hmc.o src_hmc_binomial.o src_hmc_multinomial.o src_pi_z_update.o src_utils.o -llapack -L/home/hornik/tmp/R.check/r-devel-clang/Work/build/lib -lRblas -L/usr/lib/llvm-19/lib -lFortranRuntime -lFortranDecimal -lm -L/home/hornik/tmp/R.check/r-devel-clang/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpTxcmh2/R.INSTALL2fede64053121d/hdpGLM/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpTxcmh2/R.INSTALL2fede64053121d/hdpGLM/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpTxcmh2/R.INSTALL2fede64053121d/hdpGLM/src'
installing to /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/00LOCK-hdpGLM/00new/hdpGLM/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** 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 (hdpGLM)