* installing to library ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages’
* installing *source* package ‘TDAstats’ ...
** package ‘TDAstats’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-13 (Debian 13.2.0-23) 13.2.0’
using C++11
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpF23ZyN/R.INSTALL20a7317770a671/TDAstats/src'
g++-13 -std=gnu++11 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c RcppExports.cpp -o RcppExports.o
g++-13 -std=gnu++11 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c ripser_short.cpp -o ripser_short.o
ripser_short.cpp: In function ‘bool is_prime(coefficient_t_ripser)’:
ripser_short.cpp:50:3: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
   50 |   for (coefficient_t_ripser p = 3, q = n / p, r = n % p; p <= q; p += 2, q = n / p, r = n % p)
      |   ^~~
ripser_short.cpp:52:5: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
   52 |     return true;
      |     ^~~~~~
ripser_short.cpp: In member function ‘value_t_ripser rips_filtration_comparator<DistanceMatrix>::diameter(index_t_ripser) const’:
ripser_short.cpp:165:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
  165 |     for (index_t_ripser i = 0; i <= dim; ++i)
      |     ^~~
ripser_short.cpp:167:7: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
  167 |       return diam;
      |       ^~~~~~
ripser_short.cpp: In member function ‘void compressed_distance_matrix<Layout>::init_rows() [with compressed_matrix_layout Layout = LOWER_TRIANGULAR]’:
ripser_short.cpp:255:32: warning: comparison of integer expressions of different signedness: ‘index_t_ripser’ {aka ‘long int’} and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
  255 |   for (index_t_ripser i = 1; i < size(); ++i) {
      |                              ~~^~~~~~~~
ripser_short.cpp: In member function ‘void compressed_distance_matrix<Layout>::init_rows() [with compressed_matrix_layout Layout = UPPER_TRIANGULAR]’:
ripser_short.cpp:263:32: warning: comparison of integer expressions of different signedness: ‘index_t_ripser’ {aka ‘long int’} and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
  263 |   for (index_t_ripser i = 0; i < size() - 1; ++i) {
      |                              ~~^~~~~~~~~~~~
ripser_short.cpp: In function ‘compressed_lower_distance_matrix getLowerDistMatrix(Rcpp::NumericMatrix)’:
ripser_short.cpp:557:17: warning: unused variable ‘numCols’ [-Wunused-variable]
  557 |                 numCols = inputMat.ncol();
      |                 ^~~~~~~
ripser_short.cpp: In function ‘Rcpp::NumericVector ripser_cpp(Rcpp::NumericMatrix, int, float, int)’:
ripser_short.cpp:671:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::vector<double> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  671 |   for (int i = 0; i < pers_hom.size(); i++)
      |                   ~~^~~~~~~~~~~~~~~~~
ripser_short.cpp:671:3: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
  671 |   for (int i = 0; i < pers_hom.size(); i++)
      |   ^~~
ripser_short.cpp:677:5: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
  677 |     return ans;
      |     ^~~~~~
ripser_short.cpp: In instantiation of ‘void compute_pairs(std::vector<diameter_index_t>&, hash_map<long int, long int>&, index_t_ripser, index_t_ripser, value_t_ripser, coefficient_t_ripser, const std::vector<short int>&, const DistanceMatrix&, const ComparatorCofaces&, const Comparator&, const binomial_coeff_table&, std::vector<std::vector<double> >&) [with DistanceMatrix = compressed_distance_matrix<LOWER_TRIANGULAR>; ComparatorCofaces = rips_filtration_comparator<compressed_distance_matrix<LOWER_TRIANGULAR> >; Comparator = rips_filtration_comparator<compressed_distance_matrix<LOWER_TRIANGULAR> >; index_t_ripser = long int; value_t_ripser = double; coefficient_t_ripser = short int]’:
ripser_short.cpp:661:18:   required from here
ripser_short.cpp:436:32: warning: comparison of integer expressions of different signedness: ‘index_t_ripser’ {aka ‘long int’} and ‘std::vector<diameter_index_t>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  436 |   for (index_t_ripser i = 0; i < columns_to_reduce.size(); ++i) {
      |                              ~~^~~~~~~~~~~~~~~~~~~~~~~~~~
g++-13 -std=gnu++11 -shared -L/home/hornik/tmp/R.check/r-devel-gcc/Work/build/lib -Wl,-O1 -o TDAstats.so RcppExports.o ripser_short.o -L/home/hornik/tmp/R.check/r-devel-gcc/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpF23ZyN/R.INSTALL20a7317770a671/TDAstats/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpF23ZyN/R.INSTALL20a7317770a671/TDAstats/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpF23ZyN/R.INSTALL20a7317770a671/TDAstats/src'
installing to /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/00LOCK-TDAstats/00new/TDAstats/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
* creating tarball
packaged installation of ‘TDAstats’ as ‘TDAstats_0.4.1_R_x86_64-pc-linux-gnu.tar.gz’
* DONE (TDAstats)