downloading reverse dependencies ‘bigPLScox’, ‘fusedMGM’, ‘plmmr’

trying URL 'file:///data/Repositories/CRAN/src/contrib/bigPLScox_0.8.1.tar.gz'
trying URL 'file:///data/Repositories/CRAN/src/contrib/fusedMGM_0.1.2.tar.gz'
trying URL 'file:///data/Repositories/CRAN/src/contrib/plmmr_4.3.0.tar.gz'

installing dependencies ‘bigalgebra’, ‘biganalytics’, ‘biglasso’,
  ‘bigSurvSGD’, ‘plsRcox’, ‘risksetROC’, ‘sgPLS’, ‘survcomp’

also installing the dependency ‘plsRglm’

begin installing package ‘plsRglm’
begin installing package ‘bigalgebra’
begin installing package ‘bigSurvSGD’
begin installing package ‘risksetROC’
begin installing package ‘sgPLS’
begin installing package ‘survcomp’
begin installing package ‘biglasso’
begin installing package ‘biganalytics’
* installing *source* package ‘bigalgebra’ ...
** this is package ‘bigalgebra’ version ‘3.1.1’
** using staged installation
** libs
using C compiler: ‘gcc-16 (Debian 16.2.0-1) 16.2.0’
using C++ compiler: ‘g++-16 (Debian 16.2.0-1) 16.2.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpFfHGWZ/R.INSTALL2d41f51f6ce823/bigalgebra/src'
gcc-16 -I"/home/hornik/tmp/R/include" -DNDEBUG -I../include -DUSE_FC_LEN_T -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/bigmemory/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c R_init_bigalgebra.c -o R_init_bigalgebra.o
g++-16 -std=gnu++20 -I"/home/hornik/tmp/R/include" -DNDEBUG -I../include -DUSE_FC_LEN_T -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/bigmemory/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c bigalgebra.cpp -o bigalgebra.o
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/shared_ptr.hpp:17,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/bigmemory/include/bigmemory/BigMatrix.h:10,
                 from bigalgebra.cpp:35:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/shared_count.hpp:294:33: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  294 |     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
      |                                 ^~~~~~~~
In file included from /usr/include/c++/16/memory:80,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/sp_counted_impl.hpp:27,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/shared_count.hpp:23:
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:354:31: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  354 |     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
      |                               ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:365:22: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  365 |     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
      |                      ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:423:34: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  423 |     shared_ptr & operator=( std::auto_ptr<Y> & r )
      |                                  ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:430:34: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  430 |     shared_ptr & operator=( std::auto_ptr<Y> && r )
      |                                  ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)’:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:432:38: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  432 |         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
      |                                      ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
g++-16 -std=gnu++20 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o bigalgebra.so R_init_bigalgebra.o bigalgebra.o -llapack -L/home/hornik/tmp/R/lib -lRblas -lgfortran -lm -latomic_asneeded -lquadmath -L/home/hornik/tmp/R/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpFfHGWZ/R.INSTALL2d41f51f6ce823/bigalgebra/src'
installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-bigalgebra/00new/bigalgebra/libs
** R
** 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 (bigalgebra)
* installing *source* package ‘risksetROC’ ...
** this is package ‘risksetROC’ version ‘1.0.4.1’
** package ‘risksetROC’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** data
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (risksetROC)
* installing *source* package ‘sgPLS’ ...
** this is package ‘sgPLS’ version ‘1.8.1’
** package ‘sgPLS’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** data
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (sgPLS)
* installing *source* package ‘survcomp’ ...
** this is package ‘survcomp’ version ‘1.62.0’
** using staged installation
** libs
using C compiler: ‘gcc-16 (Debian 16.2.0-1) 16.2.0’
using C++ compiler: ‘g++-16 (Debian 16.2.0-1) 16.2.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmpw5eokN/R.INSTALL2d41f95db0ed30/survcomp/src'
gcc-16 -I"/home/hornik/tmp/R/include" -DNDEBUG   -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c concordance.index.c -o concordance.index.o
g++-16 -std=gnu++20 -I"/home/hornik/tmp/R/include" -DNDEBUG   -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c foo_mrmr_ensemble_surv.cpp -o foo_mrmr_ensemble_surv.o
foo_mrmr_ensemble_surv.cpp: In function ‘double get_correlation_ensemble(double*, int*, int, int, int)’:
foo_mrmr_ensemble_surv.cpp:12:33: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
   12 |         for( unsigned int i=0; i< size; ++i ) {
      |                                ~^~~~~~
foo_mrmr_ensemble_surv.cpp:22:33: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
   22 |         for( unsigned int i=0; i< size; ++i ) {
      |                                ~^~~~~~
foo_mrmr_ensemble_surv.cpp: In function ‘double returnConcordanceIndexC(int*, int*, double*, int*, double*, int*, double*, int*, int*, int*, int, int*)’:
foo_mrmr_ensemble_surv.cpp:40:16: warning: ISO C++ forbids variable length array ‘res_ch’ [-Wvla]
   40 |         double res_ch[lenStrat];
      |                ^~~~~~
foo_mrmr_ensemble_surv.cpp:41:16: warning: ISO C++ forbids variable length array ‘res_dh’ [-Wvla]
   41 |         double res_dh[lenStrat];
      |                ^~~~~~
foo_mrmr_ensemble_surv.cpp:48:21: warning: ISO C++ forbids variable length array ‘ixs’ [-Wvla]
   48 |                 int ixs[lenStrat];
      |                     ^~~
foo_mrmr_ensemble_surv.cpp:64:24: warning: ISO C++ forbids variable length array ‘xs’ [-Wvla]
   64 |                 double xs[Ns];
      |                        ^~
foo_mrmr_ensemble_surv.cpp:72:21: warning: ISO C++ forbids variable length array ‘cls’ [-Wvla]
   72 |                 int cls[Ns];
      |                     ^~~
foo_mrmr_ensemble_surv.cpp:80:24: warning: ISO C++ forbids variable length array ‘sts’ [-Wvla]
   80 |                 double sts[Ns];
      |                        ^~~
foo_mrmr_ensemble_surv.cpp:88:21: warning: ISO C++ forbids variable length array ‘ses’ [-Wvla]
   88 |                 int ses[Ns];
      |                     ^~~
foo_mrmr_ensemble_surv.cpp:96:24: warning: ISO C++ forbids variable length array ‘weightss’ [-Wvla]
   96 |                 double weightss[Ns];
      |                        ^~~~~~~~
foo_mrmr_ensemble_surv.cpp:104:24: warning: ISO C++ forbids variable length array ‘chs’ [-Wvla]
  104 |                 double chs[Ns];
      |                        ^~~
foo_mrmr_ensemble_surv.cpp:105:24: warning: ISO C++ forbids variable length array ‘dhs’ [-Wvla]
  105 |                 double dhs[Ns];
      |                        ^~~
foo_mrmr_ensemble_surv.cpp:106:24: warning: ISO C++ forbids variable length array ‘uhs’ [-Wvla]
  106 |                 double uhs[Ns];
      |                        ^~~
foo_mrmr_ensemble_surv.cpp:107:24: warning: ISO C++ forbids variable length array ‘rphs’ [-Wvla]
  107 |                 double rphs[Ns];
      |                        ^~~~
foo_mrmr_ensemble_surv.cpp:106:24: warning: variable ‘uhs’ set but not used [-Wunused-but-set-variable=]
  106 |                 double uhs[Ns];
      |                        ^~~
foo_mrmr_ensemble_surv.cpp:107:24: warning: variable ‘rphs’ set but not used [-Wunused-but-set-variable=]
  107 |                 double rphs[Ns];
      |                        ^~~~
foo_mrmr_ensemble_surv.cpp: In function ‘void build_mim_cIndex_subset(double*, double*, int*, int, int, int*, int, int*, int*, int*, double*, int*, double*, int*, int*, int*, int*)’:
foo_mrmr_ensemble_surv.cpp:202:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  202 |         for(unsigned int i=0; i< size_subset; ++i){
      |                               ~^~~~~~~~~~~~~
foo_mrmr_ensemble_surv.cpp:203:40: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  203 |                 for(unsigned int j=0; j< (nvar-1); ++j){
      |                                       ~^~~~~~~~~~
foo_mrmr_ensemble_surv.cpp:214:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  214 |         for(unsigned int i=0; i< nvar-1; ++i){
      |                               ~^~~~~~~~
foo_mrmr_ensemble_surv.cpp:216:42: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  216 |                 for(unsigned int j=i+1; j< nvar-1; ++j){
      |                                         ~^~~~~~~~
foo_mrmr_ensemble_surv.cpp:191:24: warning: unused variable ‘msurv_x’ [-Wunused-variable]
  191 |         int *namat_x, *msurv_x, *ustrat_x, *cl2_x, *se_x, *strat_x;
      |                        ^~~~~~~
foo_mrmr_ensemble_surv.cpp:191:34: warning: unused variable ‘ustrat_x’ [-Wunused-variable]
  191 |         int *namat_x, *msurv_x, *ustrat_x, *cl2_x, *se_x, *strat_x;
      |                                  ^~~~~~~~
foo_mrmr_ensemble_surv.cpp: In function ‘void bootstrap_tree(tree<int>&, tree<double>&, double*, int*, int, int, int, int*, int*, int*, double*, int*, double*, int*, int*, int*, int, int*)’:
foo_mrmr_ensemble_surv.cpp:351:21: warning: unused variable ‘cnt_back’ [-Wunused-variable]
  351 |                 int cnt_back=cnt2;
      |                     ^~~~~~~~
foo_mrmr_ensemble_surv.cpp:286:14: warning: unused variable ‘nsub’ [-Wunused-variable]
  286 |         int  nsub, *prev_sel,nsamples_boot=nsamples,*to_remove;
      |              ^~~~
foo_mrmr_ensemble_surv.cpp: In function ‘void bootstrap_mrmr(double&, double&, double*, int*, int, int, int, int, int, int, int, int*, int*, int*, int*, double*, int*, double*, int*, int*, int*, int, int*)’:
foo_mrmr_ensemble_surv.cpp:393:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  393 |         for(unsigned int k=0; k< rep_boot; ++k){
      |                               ~^~~~~~~~~~
foo_mrmr_ensemble_surv.cpp:396:39: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  396 |                 for(unsigned int i=1;i<= size_boot;++i){
      |                                      ~^~~~~~~~~~~~
foo_mrmr_ensemble_surv.cpp:400:41: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  400 |                 for( unsigned int i=0; i< size ; ++i ){
      |                                        ~^~~~~~
foo_mrmr_ensemble_surv.cpp:401:49: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  401 |                         for( unsigned int j=0; j< size ; ++j ){
      |                                                ~^~~~~~
foo_mrmr_ensemble_surv.cpp:412:31: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  412 |         for(unsigned int i=0;i< rep_boot;++i){
      |                              ~^~~~~~~~~~
foo_mrmr_ensemble_surv.cpp:419:31: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  419 |         for(unsigned int i=0;i< rep_boot;++i){
      |                              ~^~~~~~~~~~
foo_mrmr_ensemble_surv.cpp:387:17: warning: unused variable ‘mim’ [-Wunused-variable]
  387 |         double *mim, *boot_val, *mat_info;
      |                 ^~~
foo_mrmr_ensemble_surv.cpp: In function ‘double mrnet_onegene(double*, int, int, int*, int, int)’:
foo_mrmr_ensemble_surv.cpp:448:39: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  448 |                 for(unsigned int j=0;j< nbvar; j++){
      |                                      ~^~~~~~~
foo_mrmr_ensemble_surv.cpp:437:22: warning: variable ‘jmax’ set but not used [-Wunused-but-set-variable=]
  437 |         unsigned int jmax;
      |                      ^~~~
foo_mrmr_ensemble_surv.cpp:439:16: warning: unused variable ‘max_val’ [-Wunused-variable]
  439 |         double max_val=-1000;
      |                ^~~~~~~
foo_mrmr_ensemble_surv.cpp: In function ‘int verify_equivalentset_nparents(tree<int>&, tree<int>::pre_order_iterator, tree<int>::pre_order_iterator, tree<double>&, int)’:
foo_mrmr_ensemble_surv.cpp:473:13: warning: ISO C++ forbids variable length array ‘vec_old’ [-Wvla]
  473 |         int vec_old[depth+1];
      |             ^~~~~~~
foo_mrmr_ensemble_surv.cpp:474:13: warning: ISO C++ forbids variable length array ‘mat_res’ [-Wvla]
  474 |         int mat_res [power((maxnsol+1),(depth))][depth+2];
      |             ^~~~~~~
foo_mrmr_ensemble_surv.cpp:474:13: warning: ISO C++ forbids variable length array ‘mat_res’ [-Wvla]
foo_mrmr_ensemble_surv.cpp:476:13: warning: ISO C++ forbids variable length array ‘to_remove’ [-Wvla]
  476 |         int to_remove[number_leafs];
      |             ^~~~~~~~~
foo_mrmr_ensemble_surv.cpp:467:14: warning: unused variable ‘found’ [-Wunused-variable]
  467 |         bool found=false;
      |              ^~~~~
foo_mrmr_ensemble_surv.cpp: In function ‘void mrmr_ensemble_one_gene_remove(tree<int>&, tree<int>::pre_order_iterator, double*, int*, int, int, int, int, int, int, double, int*, int*, int*, double*, int*, double*, int*, int*, int*, int, int*)’:
foo_mrmr_ensemble_surv.cpp:593:31: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  593 |         for(unsigned int i=1;i<= nsamples;++i){
      |                              ~^~~~~~~~~~~
foo_mrmr_ensemble_surv.cpp:596:33: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  596 |         for( unsigned int i=0; i< n; ++i ){
      |                                ~^~~
foo_mrmr_ensemble_surv.cpp:597:41: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  597 |                 for( unsigned int j=0; j< n; ++j ){
      |                                        ~^~~
foo_mrmr_ensemble_surv.cpp:604:31: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  604 |         for(unsigned int k=0;k< max_elements ;++k){
      |                              ~^~~~~~~~~~~~~~
foo_mrmr_ensemble_surv.cpp:646:48: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  646 |                         for (unsigned int i=0;i<=max_depth;++i){
      |                                               ~^~~~~~~~~~~
foo_mrmr_ensemble_surv.cpp:654:47: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  654 |                         for(unsigned int k=0;k< n;++k){
      |                                              ~^~~
foo_mrmr_ensemble_surv.cpp:657:47: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘const int’ [-Wsign-compare]
  657 |                         for(unsigned int k=0;k<=max(res_tmp_new.depth(it_local),max_depth) ;++k){
      |                                              ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
foo_mrmr_ensemble_surv.cpp:661:47: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  661 |                         for(unsigned int k=0;k< n;++k){
      |                                              ~^~~
foo_mrmr_ensemble_surv.cpp:578:31: warning: unused variable ‘nsamples_boot’ [-Wunused-variable]
  578 |         int  *nsub, *prev_sel,nsamples_boot=nsamples, tmp_val_max_ind, *prev_sel_tmp,*vec_sol_local,ndelete;
      |                               ^~~~~~~~~~~~~
foo_mrmr_ensemble_surv.cpp:578:55: warning: unused variable ‘tmp_val_max_ind’ [-Wunused-variable]
  578 |         int  *nsub, *prev_sel,nsamples_boot=nsamples, tmp_val_max_ind, *prev_sel_tmp,*vec_sol_local,ndelete;
      |                                                       ^~~~~~~~~~~~~~~
foo_mrmr_ensemble_surv.cpp:578:73: warning: unused variable ‘prev_sel_tmp’ [-Wunused-variable]
  578 |         int  *nsub, *prev_sel,nsamples_boot=nsamples, tmp_val_max_ind, *prev_sel_tmp,*vec_sol_local,ndelete;
      |                                                                         ^~~~~~~~~~~~
foo_mrmr_ensemble_surv.cpp:579:28: warning: unused variable ‘vec_sort’ [-Wunused-variable]
  579 |         double *vec_mean, *vec_sort, *vec_sd,  *vec_local_max_mean, *vec_local_max_sd,tmp_val_max, *mrmr_vec_sort,*vec_sol_local_mrmr;
      |                            ^~~~~~~~
foo_mrmr_ensemble_surv.cpp:579:70: warning: variable ‘vec_local_max_sd’ set but not used [-Wunused-but-set-variable=]
  579 |         double *vec_mean, *vec_sort, *vec_sd,  *vec_local_max_mean, *vec_local_max_sd,tmp_val_max, *mrmr_vec_sort,*vec_sol_local_mrmr;
      |                                                                      ^~~~~~~~~~~~~~~~
foo_mrmr_ensemble_surv.cpp: In function ‘SEXPREC* mrmr_cIndex_ensemble_remove(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)’:
foo_mrmr_ensemble_surv.cpp:788:31: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘const int’ [-Wsign-compare]
  788 |         for(unsigned int i=0;i< *npredn;++i){
      |                              ~^~~~~~~~~
foo_mrmr_ensemble_surv.cpp:822:47: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  822 |                         for(unsigned int k=0;k<length_res_old;k++){
      |                                              ~^~~~~~~~~~~~~~~
foo_mrmr_ensemble_surv.cpp:836:39: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  836 |                 for(unsigned int k=0;k<length_res;k++){
      |                                      ~^~~~~~~~~~~
foo_mrmr_ensemble_surv.cpp:841:21: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  841 |                 if(i==(*npredn-1)){
      |                    ~^~~~~~~~~~~~~
foo_mrmr_ensemble_surv.cpp:845:47: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  845 |                         for(unsigned int k=0;k<length_res;k++){
      |                                              ~^~~~~~~~~~~
foo_mrmr_ensemble_surv.cpp:803:27: warning: unused variable ‘cnt2’ [-Wunused-variable]
  803 |                 int cnt=1,cnt2=0;
      |                           ^~~~
foo_mrmr_ensemble_surv.cpp:806:21: warning: unused variable ‘rootdepth’ [-Wunused-variable]
  806 |                 int rootdepth=res_tree.depth(it_final);
      |                     ^~~~~~~~~
foo_mrmr_ensemble_surv.cpp:819:21: warning: unused variable ‘ind’ [-Wunused-variable]
  819 |                 int ind=0;
      |                     ^~~
foo_mrmr_ensemble_surv.cpp:733:37: warning: unused variable ‘res_all’ [-Wunused-variable]
  733 |         int *predn, *rep_boot,*res,*res_all,*res_all2, *namat;
      |                                     ^~~~~~~
foo_mrmr_ensemble_surv.cpp:733:46: warning: unused variable ‘res_all2’ [-Wunused-variable]
  733 |         int *predn, *rep_boot,*res,*res_all,*res_all2, *namat;
      |                                              ^~~~~~~~
foo_mrmr_ensemble_surv.cpp:734:13: warning: unused variable ‘vec_tmp’ [-Wunused-variable]
  734 |         int vec_tmp;
      |             ^~~~~~~
foo_mrmr_ensemble_surv.cpp:861:16: warning: ‘Rres’ may be used uninitialized [-Wmaybe-uninitialized]
  861 |         return Rres;
      |                ^~~~
foo_mrmr_ensemble_surv.cpp:741:14: note: ‘Rres’ was declared here
  741 |         SEXP Rres;
      |              ^~~~
g++-16 -std=gnu++20 -I"/home/hornik/tmp/R/include" -DNDEBUG   -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c foo_mrmr_surv.cpp -o foo_mrmr_surv.o
foo_mrmr_surv.cpp: In function ‘double get_correlation(double*, int*, int, int, int)’:
foo_mrmr_surv.cpp:12:33: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
   12 |         for( unsigned int i=0; i< size; ++i ) {
      |                                ~^~~~~~
foo_mrmr_surv.cpp:22:33: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
   22 |         for( unsigned int i=0; i< size; ++i ) {
      |                                ~^~~~~~
foo_mrmr_surv.cpp: In function ‘void build_mim_subset(double*, double*, int*, int, int, int*, int)’:
foo_mrmr_surv.cpp:49:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
   49 |         for(unsigned int i=0; i< size_subset; ++i){
      |                               ~^~~~~~~~~~~~~
foo_mrmr_surv.cpp:50:40: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
   50 |                 for(unsigned int j=0; j< nvar; ++j){
      |                                       ~^~~~~~
foo_mrmr_surv.cpp:56:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
   56 |         for(unsigned int i=0; i< nvar; ++i){
      |                               ~^~~~~~
foo_mrmr_surv.cpp:58:42: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
   58 |                 for(unsigned int j=i+1; j< nvar; ++j){
      |                                         ~^~~~~~
foo_mrmr_surv.cpp: In function ‘double returnConcordanceIndexC(int*, int*, double*, int*, double*, int*, double*, int*, int*, int*, int*, int*)’:
foo_mrmr_surv.cpp:80:16: warning: ISO C++ forbids variable length array ‘res_ch’ [-Wvla]
   80 |         double res_ch[lenStrat];
      |                ^~~~~~
foo_mrmr_surv.cpp:81:16: warning: ISO C++ forbids variable length array ‘res_dh’ [-Wvla]
   81 |         double res_dh[lenStrat];
      |                ^~~~~~
foo_mrmr_surv.cpp:88:21: warning: ISO C++ forbids variable length array ‘ixs’ [-Wvla]
   88 |                 int ixs[lenStrat];
      |                     ^~~
foo_mrmr_surv.cpp:104:24: warning: ISO C++ forbids variable length array ‘xs’ [-Wvla]
  104 |                 double xs[Ns];
      |                        ^~
foo_mrmr_surv.cpp:112:21: warning: ISO C++ forbids variable length array ‘cls’ [-Wvla]
  112 |                 int cls[Ns];
      |                     ^~~
foo_mrmr_surv.cpp:120:24: warning: ISO C++ forbids variable length array ‘sts’ [-Wvla]
  120 |                 double sts[Ns];
      |                        ^~~
foo_mrmr_surv.cpp:128:21: warning: ISO C++ forbids variable length array ‘ses’ [-Wvla]
  128 |                 int ses[Ns];
      |                     ^~~
foo_mrmr_surv.cpp:136:24: warning: ISO C++ forbids variable length array ‘weightss’ [-Wvla]
  136 |                 double weightss[Ns];
      |                        ^~~~~~~~
foo_mrmr_surv.cpp:144:24: warning: ISO C++ forbids variable length array ‘chs’ [-Wvla]
  144 |                 double chs[Ns];
      |                        ^~~
foo_mrmr_surv.cpp:145:24: warning: ISO C++ forbids variable length array ‘dhs’ [-Wvla]
  145 |                 double dhs[Ns];
      |                        ^~~
foo_mrmr_surv.cpp:146:24: warning: ISO C++ forbids variable length array ‘uhs’ [-Wvla]
  146 |                 double uhs[Ns];
      |                        ^~~
foo_mrmr_surv.cpp:147:24: warning: ISO C++ forbids variable length array ‘rphs’ [-Wvla]
  147 |                 double rphs[Ns];
      |                        ^~~~
foo_mrmr_surv.cpp:146:24: warning: variable ‘uhs’ set but not used [-Wunused-but-set-variable=]
  146 |                 double uhs[Ns];
      |                        ^~~
foo_mrmr_surv.cpp:147:24: warning: variable ‘rphs’ set but not used [-Wunused-but-set-variable=]
  147 |                 double rphs[Ns];
      |                        ^~~~
foo_mrmr_surv.cpp: In function ‘SEXPREC* mrmr_cIndex(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)’:
foo_mrmr_surv.cpp:301:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘const int’ [-Wsign-compare]
  301 |         for(unsigned int i=0;i < *nsample; ++i){
      |                              ~~^~~~~~~~~~
foo_mrmr_surv.cpp:341:40: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
  341 |                         for( int l=0; l<n; ++l )
      |                                       ~^~
g++-16 -std=gnu++20 -I"/home/hornik/tmp/R/include" -DNDEBUG   -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c survcomp_init.cpp -o survcomp_init.o
g++-16 -std=gnu++20 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o survcomp.so concordance.index.o foo_mrmr_ensemble_surv.o foo_mrmr_surv.o survcomp_init.o -L/home/hornik/tmp/R/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmpw5eokN/R.INSTALL2d41f95db0ed30/survcomp/src'
installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-survcomp/00new/survcomp/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 (survcomp)
* installing *source* package ‘biganalytics’ ...
** this is package ‘biganalytics’ version ‘1.1.22’
** package ‘biganalytics’ successfully unpacked and MD5 sums checked
** using staged installation
  checking for Sun Studio compiler...
no
  checking for OS...
Linux
** libs
using C compiler: ‘gcc-16 (Debian 16.2.0-1) 16.2.0’
using C++ compiler: ‘g++-16 (Debian 16.2.0-1) 16.2.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpYZKetg/R.INSTALL2d41ff17447178/biganalytics/src'
gcc-16 -I"/home/hornik/tmp/R/include" -DNDEBUG -I../include -DLINUX -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/bigmemory/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c biganalytics_init.c -o biganalytics_init.o
g++-16 -std=gnu++20 -I"/home/hornik/tmp/R/include" -DNDEBUG -I../include -DLINUX -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/bigmemory/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c binit.cpp -o binit.o
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/shared_ptr.hpp:17,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/bigmemory/include/bigmemory/BigMatrix.h:10,
                 from binit.cpp:4:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/shared_count.hpp:294:33: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  294 |     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
      |                                 ^~~~~~~~
In file included from /usr/include/c++/16/memory:80,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/sp_counted_impl.hpp:27,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/shared_count.hpp:23:
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:354:31: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  354 |     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
      |                               ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:365:22: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  365 |     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
      |                      ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:423:34: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  423 |     shared_ptr & operator=( std::auto_ptr<Y> & r )
      |                                  ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:430:34: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  430 |     shared_ptr & operator=( std::auto_ptr<Y> && r )
      |                                  ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)’:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:432:38: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  432 |         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
      |                                      ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
g++-16 -std=gnu++20 -I"/home/hornik/tmp/R/include" -DNDEBUG -I../include -DLINUX -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/bigmemory/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c hash.cpp -o hash.o
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/shared_ptr.hpp:17,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/bigmemory/include/bigmemory/BigMatrix.h:10,
                 from hash.cpp:2:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/shared_count.hpp:294:33: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  294 |     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
      |                                 ^~~~~~~~
In file included from /usr/include/c++/16/memory:80,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/sp_counted_impl.hpp:27,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/shared_count.hpp:23:
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:354:31: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  354 |     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
      |                               ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:365:22: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  365 |     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
      |                      ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:423:34: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  423 |     shared_ptr & operator=( std::auto_ptr<Y> & r )
      |                                  ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:430:34: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  430 |     shared_ptr & operator=( std::auto_ptr<Y> && r )
      |                                  ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)’:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:432:38: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  432 |         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
      |                                      ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
g++-16 -std=gnu++20 -I"/home/hornik/tmp/R/include" -DNDEBUG -I../include -DLINUX -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/bigmemory/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c kmeans.cpp -o kmeans.o
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/shared_ptr.hpp:17,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/bigmemory/include/bigmemory/BigMatrix.h:10,
                 from kmeans.cpp:32:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/shared_count.hpp:294:33: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  294 |     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
      |                                 ^~~~~~~~
In file included from /usr/include/c++/16/memory:80,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/sp_counted_impl.hpp:27,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/shared_count.hpp:23:
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:354:31: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  354 |     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
      |                               ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:365:22: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  365 |     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
      |                      ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:423:34: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  423 |     shared_ptr & operator=( std::auto_ptr<Y> & r )
      |                                  ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:430:34: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  430 |     shared_ptr & operator=( std::auto_ptr<Y> && r )
      |                                  ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)’:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:432:38: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  432 |         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
      |                                      ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
g++-16 -std=gnu++20 -I"/home/hornik/tmp/R/include" -DNDEBUG -I../include -DLINUX -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/bigmemory/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c summary_stat.cpp -o summary_stat.o
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/shared_ptr.hpp:17,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/bigmemory/include/bigmemory/BigMatrix.h:10,
                 from summary_stat.cpp:7:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/shared_count.hpp:294:33: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  294 |     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
      |                                 ^~~~~~~~
In file included from /usr/include/c++/16/memory:80,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/sp_counted_impl.hpp:27,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/shared_count.hpp:23:
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:354:31: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  354 |     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
      |                               ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:365:22: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  365 |     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
      |                      ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:423:34: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  423 |     shared_ptr & operator=( std::auto_ptr<Y> & r )
      |                                  ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:430:34: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  430 |     shared_ptr & operator=( std::auto_ptr<Y> && r )
      |                                  ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)’:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:432:38: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  432 |         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
      |                                      ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
g++-16 -std=gnu++20 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o biganalytics.so biganalytics_init.o binit.o hash.o kmeans.o summary_stat.o -lrt -L/home/hornik/tmp/R/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpYZKetg/R.INSTALL2d41ff17447178/biganalytics/src'
installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-biganalytics/00new/biganalytics/libs
** R
** byte-compile and prepare package for lazy loading
Creating a generic function for ‘apply’ from package ‘base’ in package ‘biganalytics’
** help
*** installing help indices
** 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 (biganalytics)
* installing *source* package ‘bigSurvSGD’ ...
** this is package ‘bigSurvSGD’ version ‘0.0.1’
** package ‘bigSurvSGD’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-16 (Debian 16.2.0-1) 16.2.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpFpeIwZ/R.INSTALL2d41fb47998d73/bigSurvSGD/src'
g++-16 -std=gnu++20 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c RcppExports.cpp -o RcppExports.o
g++-16 -std=gnu++20 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c lambdaMaxC.cpp -o lambdaMaxC.o
g++-16 -std=gnu++20 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c oneChunkC.cpp -o oneChunkC.o
g++-16 -std=gnu++20 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c oneObsPlugingC.cpp -o oneObsPlugingC.o
g++-16 -std=gnu++20 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o bigSurvSGD.so RcppExports.o lambdaMaxC.o oneChunkC.o oneObsPlugingC.o -L/home/hornik/tmp/R/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpFpeIwZ/R.INSTALL2d41fb47998d73/bigSurvSGD/src'
installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-bigSurvSGD/00new/bigSurvSGD/libs
** R
** data
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** 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 (bigSurvSGD)
* installing *source* package ‘plsRglm’ ...
** this is package ‘plsRglm’ version ‘1.7.1’
** package ‘plsRglm’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-16 (Debian 16.2.0-1) 16.2.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp36PeAk/R.INSTALL2d41f34cebcb6a/plsRglm/src'
g++-16 -std=gnu++20 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c RcppExports.cpp -o RcppExports.o
g++-16 -std=gnu++20 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c pls_component.cpp -o pls_component.o
g++-16 -std=gnu++20 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o plsRglm.so RcppExports.o pls_component.o -llapack -L/home/hornik/tmp/R/lib -lRblas -lgfortran -lm -latomic_asneeded -lquadmath -L/home/hornik/tmp/R/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp36PeAk/R.INSTALL2d41f34cebcb6a/plsRglm/src'
installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-plsRglm/00new/plsRglm/libs
** R
** data
** demo
** 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 (plsRglm)
begin installing package ‘plsRcox’
* installing *source* package ‘plsRcox’ ...
** this is package ‘plsRcox’ version ‘1.8.2’
** package ‘plsRcox’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** building package indices
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (plsRcox)
* installing *source* package ‘biglasso’ ...
** this is package ‘biglasso’ version ‘1.7.2’
** package ‘biglasso’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘gcc-16 (Debian 16.2.0-1) 16.2.0’
using C++ compiler: ‘g++-16 (Debian 16.2.0-1) 16.2.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpJUHgxL/R.INSTALL2d4201da81cf6/biglasso/src'
g++-16 -std=gnu++20 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/bigmemory/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c RcppExports.cpp -o RcppExports.o
g++-16 -std=gnu++20 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/bigmemory/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c binomial.cpp -o binomial.o
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/shared_ptr.hpp:17,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/bigmemory/include/bigmemory/BigMatrix.h:10,
                 from utilities.h:18,
                 from binomial.cpp:1:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/shared_count.hpp:294:33: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  294 |     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
      |                                 ^~~~~~~~
In file included from /usr/include/c++/16/memory:80,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/sp_counted_impl.hpp:27,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/shared_count.hpp:23:
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:354:31: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  354 |     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
      |                               ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:365:22: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  365 |     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
      |                      ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:423:34: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  423 |     shared_ptr & operator=( std::auto_ptr<Y> & r )
      |                                  ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:430:34: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  430 |     shared_ptr & operator=( std::auto_ptr<Y> && r )
      |                                  ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)’:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:432:38: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  432 |         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
      |                                      ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
binomial.cpp: In function ‘SEXPREC* cdfit_binomial_ssr_approx(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)’:
binomial.cpp:810:34: warning: ‘sumS’ may be used uninitialized [-Wmaybe-uninitialized]
  810 |       violations = check_rest_set(e1, e2, z, xMat, row_idx, col_idx, center,
      |                    ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  811 |                                   scale, a, lambda[l], sumS, alpha, s, m, n, p);
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
binomial.cpp:633:10: note: ‘sumS’ was declared here
  633 |   double sumS;     // temp result sum of s
      |          ^~~~
g++-16 -std=gnu++20 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/bigmemory/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c cox.cpp -o cox.o
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/shared_ptr.hpp:17,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/bigmemory/include/bigmemory/BigMatrix.h:10,
                 from utilities.h:18,
                 from cox.cpp:1:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/shared_count.hpp:294:33: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  294 |     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
      |                                 ^~~~~~~~
In file included from /usr/include/c++/16/memory:80,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/sp_counted_impl.hpp:27,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/shared_count.hpp:23:
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:354:31: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  354 |     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
      |                               ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:365:22: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  365 |     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
      |                      ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:423:34: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  423 |     shared_ptr & operator=( std::auto_ptr<Y> & r )
      |                                  ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:430:34: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  430 |     shared_ptr & operator=( std::auto_ptr<Y> && r )
      |                                  ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)’:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:432:38: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  432 |         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
      |                                      ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
cox.cpp: In function ‘_Z9safe_initRSt6vectorIdSaIdEEN4Rcpp4XPtrI9BigMatrixNS3_15PreserveStorageEXadL_ZNS3_25standard_delete_finalizerIS5_EEvPT_EELb0EEEPdSB_S2_iPiRS_IiSaIiEERNS3_6VectorILi14ES6_EESI_iiiSB_SB_SC_._omp_fn.0’:
cox.cpp:103:15: warning: ‘xTy’ may be used uninitialized [-Wmaybe-uninitialized]
  103 |           xTy += xCol[row_idx[i]];
      |           ~~~~^~~~~~~~~~~~~~~~~~~
cox.cpp:85:10: note: ‘xTy’ was declared here
   85 |   double xTy = 0;
      |          ^~~
g++-16 -std=gnu++20 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/bigmemory/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c gaussian.cpp -o gaussian.o
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/shared_ptr.hpp:17,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/bigmemory/include/bigmemory/BigMatrix.h:10,
                 from utilities.h:18,
                 from gaussian.cpp:1:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/shared_count.hpp:294:33: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  294 |     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
      |                                 ^~~~~~~~
In file included from /usr/include/c++/16/memory:80,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/sp_counted_impl.hpp:27,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/shared_count.hpp:23:
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:354:31: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  354 |     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
      |                               ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:365:22: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  365 |     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
      |                      ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:423:34: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  423 |     shared_ptr & operator=( std::auto_ptr<Y> & r )
      |                                  ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:430:34: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  430 |     shared_ptr & operator=( std::auto_ptr<Y> && r )
      |                                  ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)’:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:432:38: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  432 |         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
      |                                      ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
g++-16 -std=gnu++20 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/bigmemory/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c gaussian_simple.cpp -o gaussian_simple.o
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/shared_ptr.hpp:17,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/bigmemory/include/bigmemory/BigMatrix.h:10,
                 from utilities.h:18,
                 from gaussian_simple.cpp:1:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/shared_count.hpp:294:33: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  294 |     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
      |                                 ^~~~~~~~
In file included from /usr/include/c++/16/memory:80,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/sp_counted_impl.hpp:27,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/shared_count.hpp:23:
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:354:31: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  354 |     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
      |                               ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:365:22: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  365 |     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
      |                      ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:423:34: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  423 |     shared_ptr & operator=( std::auto_ptr<Y> & r )
      |                                  ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:430:34: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  430 |     shared_ptr & operator=( std::auto_ptr<Y> && r )
      |                                  ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)’:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:432:38: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  432 |         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
      |                                      ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
gcc-16 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/bigmemory/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c init.c -o init.o
g++-16 -std=gnu++20 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/bigmemory/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c mgaussian.cpp -o mgaussian.o
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/shared_ptr.hpp:17,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/bigmemory/include/bigmemory/BigMatrix.h:10,
                 from utilities.h:18,
                 from mgaussian.cpp:1:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/shared_count.hpp:294:33: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  294 |     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
      |                                 ^~~~~~~~
In file included from /usr/include/c++/16/memory:80,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/sp_counted_impl.hpp:27,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/shared_count.hpp:23:
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:354:31: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  354 |     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
      |                               ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:365:22: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  365 |     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
      |                      ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:423:34: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  423 |     shared_ptr & operator=( std::auto_ptr<Y> & r )
      |                                  ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:430:34: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  430 |     shared_ptr & operator=( std::auto_ptr<Y> && r )
      |                                  ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)’:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:432:38: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  432 |         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
      |                                      ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
g++-16 -std=gnu++20 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/bigmemory/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c utilities.cpp -o utilities.o
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/shared_ptr.hpp:17,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/bigmemory/include/bigmemory/BigMatrix.h:10,
                 from utilities.h:18,
                 from utilities.cpp:10:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/shared_count.hpp:294:33: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  294 |     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
      |                                 ^~~~~~~~
In file included from /usr/include/c++/16/memory:80,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/sp_counted_impl.hpp:27,
                 from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/shared_count.hpp:23:
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:354:31: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  354 |     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
      |                               ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:365:22: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  365 |     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
      |                      ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:423:34: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  423 |     shared_ptr & operator=( std::auto_ptr<Y> & r )
      |                                  ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:430:34: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  430 |     shared_ptr & operator=( std::auto_ptr<Y> && r )
      |                                  ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)’:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:432:38: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  432 |         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
      |                                      ^~~~~~~~
/usr/include/c++/16/bits/unique_ptr.h:58:28: note: declared here
   58 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
g++-16 -std=gnu++20 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o biglasso.so RcppExports.o binomial.o cox.o gaussian.o gaussian_simple.o init.o mgaussian.o utilities.o -fopenmp -llapack -L/home/hornik/tmp/R/lib -lRblas -lgfortran -lm -latomic_asneeded -lquadmath -L/home/hornik/tmp/R/lib -lR
if test -e "biglasso.so"; then strip -S biglasso.so; fi
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpJUHgxL/R.INSTALL2d4201da81cf6/biglasso/src'
installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-biglasso/00new/biglasso/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 (biglasso)

checking bigalgebra_3.1.1.tar.gz ...
checking bigPLScox_0.8.1.tar.gz ...
checking fusedMGM_0.1.2.tar.gz ...
checking plmmr_4.3.0.tar.gz ...

Depends:
Package: bigalgebra
  Depends: bigmemory (>= 4.0.0)
  Imports: methods
  LinkingTo: bigmemory, BH, Rcpp

Timings:
             user system elapsed
bigalgebra 35.304  5.503  43.142

Results:
Check status summary:
                  OK
  Source packages  1
  Reverse depends  3

Check results summary:
bigalgebra ... OK
rdepends_bigPLScox ... OK
rdepends_fusedMGM ... OK
rdepends_plmmr ... OK