Error with list of vectors/matrices

[pachadotdev]

Problem

I am trying to create a list of two matrices, one for the real part and one for the imaginary part of an Armadillo matrix

Working code

I have this code that works

template <typename T>
inline doubles_matrix<> Mat_to_complex_matrix_(const Mat<T>& A) {
  static_assert(is_same<T, complex<double>>::value,
                "T must be complex<double>");
  Mat<double> A_real = real(A);
  Mat<double> A_imag = imag(A);

  int n = A_real.n_rows;
  int m = A_real.n_cols;

  writable::doubles_matrix<> B_real(n, m);
  writable::doubles_matrix<> B_imag(n, m);

  for (int i = 0; i < n; ++i) {
    for (int j = 0; j < m; j++) {
      B_real(i, j) = A_real(i, j);
      B_imag(i, j) = A_imag(i, j);
    }
  }

  return B_real;
}

inline doubles_matrix<> as_complex_matrix(const Mat<complex<double>>& A) {
  return Mat_to_complex_matrix_<complex<double>>(A);
}

Failing code

If I change the output to return writable::list({"real"_nm = B_real, "imag"_nm = B_imag}) as in this example, or I use push_back, it returns

[[1]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]]
[[1]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]]
NULL

[[1]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]]
[[1]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]]
NULL

[[1]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]]
[[1]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]]
NULL

[[1]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]]
[[1]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]]
NULL

[[1]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]]
[[1]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]][[2]]
NULL

Here is the failing code

template <typename T>
inline list Mat_to_complex_matrix_(const Mat<T>& A) {
  static_assert(is_same<T, complex<double>>::value,
                "T must be complex<double>");
  Mat<double> A_real = real(A);
  Mat<double> A_imag = imag(A);

  cout << A_real << endl;
  cout << A_imag << endl;

  int n = A_real.n_rows;
  int m = A_real.n_cols;

  writable::doubles_matrix<> B_real(n, m);
  writable::doubles_matrix<> B_imag(n, m);

  for (int i = 0; i < n; ++i) {
    for (int j = 0; j < m; j++) {
      B_real(i, j) = A_real(i, j);
      B_imag(i, j) = A_imag(i, j);
    }
  }

  // return B_real;

  writable::list B;
  B.push_back({"real"_nm = B_real});
  B.push_back({"imag"_nm = B_imag});

  return B;
}

inline list as_complex_matrix(const Mat<complex<double>>& A) {
  return Mat_to_complex_matrix_<complex<double>>(A);
}

Valgrind output

I run R in debug mode like this https://pacha.dev/capybara/#debugging and I get

cpp11armadillotest (main) $ r_valgrind dev/debug_list_output.r 
==39400== Memcheck, a memory error detector
==39400== Copyright (C) 2002-2017, and GNU GPL'd, by Julian Seward et al.
==39400== Using Valgrind-3.18.1 and LibVEX; rerun with -h for copyright info
==39400== Command: /usr/lib/R/bin/exec/R --vanilla -f dev/debug_list_output.r
==39400== 

R version 4.3.2 (2023-10-31) -- "Eye Holes"
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R is free software and comes with ABSOLUTELY NO WARRANTY.
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Type 'license()' or 'licence()' for distribution details.

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> devtools::load_all()
ℹ Loading cpp11armadillotest
> 
> x <- cpp11armadillo::mtcars_mat$x
> y <- cpp11armadillo::mtcars_mat$y
> 
> x <- x[, c("wt", "cyl4", "cyl6", "cyl8")]
> 
> x <- cor(x)
> eigen_gen_mat(x)
   2.3758e+00
   2.6803e-01
   1.3562e+00
   1.2797e-16

        0
        0
        0
        0

==39400== Use of uninitialised value of size 8
==39400==    at 0x49D75F4: CAR (in /usr/lib/R/lib/libR.so)
==39400==    by 0x1389D8CF: cpp11::._anon_147::release(SEXPREC*) (protect.hpp:295)
==39400==    by 0x138A0921: cpp11::r_vector<double>::~r_vector() (r_vector.hpp:192)
==39400==    by 0x138B4E97: cpp11::matrix<cpp11::r_vector<double>, double, cpp11::by_column>::~matrix() (matrix.hpp:77)
==39400==    by 0x138B46DD: _cpp11armadillotest_eigen_gen_mat (cpp11.cpp:26)
==39400==    by 0x49562DD: ??? (in /usr/lib/R/lib/libR.so)
==39400==    by 0x495685C: ??? (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49AE34F: Rf_eval (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49B1387: ??? (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49AE10F: Rf_eval (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49AFD95: ??? (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49B0BC4: Rf_applyClosure (in /usr/lib/R/lib/libR.so)
==39400==  Uninitialised value was created by a stack allocation
==39400==    at 0x138B4623: _cpp11armadillotest_eigen_gen_mat (cpp11.cpp:24)
==39400== 
==39400== Use of uninitialised value of size 8
==39400==    at 0x49D75FB: CAR (in /usr/lib/R/lib/libR.so)
==39400==    by 0x1389D8CF: cpp11::._anon_147::release(SEXPREC*) (protect.hpp:295)
==39400==    by 0x138A0921: cpp11::r_vector<double>::~r_vector() (r_vector.hpp:192)
==39400==    by 0x138B4E97: cpp11::matrix<cpp11::r_vector<double>, double, cpp11::by_column>::~matrix() (matrix.hpp:77)
==39400==    by 0x138B46DD: _cpp11armadillotest_eigen_gen_mat (cpp11.cpp:26)
==39400==    by 0x49562DD: ??? (in /usr/lib/R/lib/libR.so)
==39400==    by 0x495685C: ??? (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49AE34F: Rf_eval (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49B1387: ??? (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49AE10F: Rf_eval (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49AFD95: ??? (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49B0BC4: Rf_applyClosure (in /usr/lib/R/lib/libR.so)
==39400==  Uninitialised value was created by a stack allocation
==39400==    at 0x138B4623: _cpp11armadillotest_eigen_gen_mat (cpp11.cpp:24)
==39400== 
==39400== Use of uninitialised value of size 8
==39400==    at 0x49E9484: CDR (in /usr/lib/R/lib/libR.so)
==39400==    by 0x1389D8DF: cpp11::._anon_147::release(SEXPREC*) (protect.hpp:296)
==39400==    by 0x138A0921: cpp11::r_vector<double>::~r_vector() (r_vector.hpp:192)
==39400==    by 0x138B4E97: cpp11::matrix<cpp11::r_vector<double>, double, cpp11::by_column>::~matrix() (matrix.hpp:77)
==39400==    by 0x138B46DD: _cpp11armadillotest_eigen_gen_mat (cpp11.cpp:26)
==39400==    by 0x49562DD: ??? (in /usr/lib/R/lib/libR.so)
==39400==    by 0x495685C: ??? (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49AE34F: Rf_eval (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49B1387: ??? (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49AE10F: Rf_eval (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49AFD95: ??? (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49B0BC4: Rf_applyClosure (in /usr/lib/R/lib/libR.so)
==39400==  Uninitialised value was created by a stack allocation
==39400==    at 0x138B4623: _cpp11armadillotest_eigen_gen_mat (cpp11.cpp:24)
==39400== 
==39400== Invalid read of size 2
==39400==    at 0x49E97D4: SETCAR (in /usr/lib/R/lib/libR.so)
==39400==    by 0x1389D909: cpp11::._anon_147::release(SEXPREC*) (protect.hpp:302)
==39400==    by 0x138A0921: cpp11::r_vector<double>::~r_vector() (r_vector.hpp:192)
==39400==    by 0x138B4E97: cpp11::matrix<cpp11::r_vector<double>, double, cpp11::by_column>::~matrix() (matrix.hpp:77)
==39400==    by 0x138B46DD: _cpp11armadillotest_eigen_gen_mat (cpp11.cpp:26)
==39400==    by 0x49562DD: ??? (in /usr/lib/R/lib/libR.so)
==39400==    by 0x495685C: ??? (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49AE34F: Rf_eval (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49B1387: ??? (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49AE10F: Rf_eval (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49AFD95: ??? (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49B0BC4: Rf_applyClosure (in /usr/lib/R/lib/libR.so)
==39400==  Address 0x5 is not stack'd, malloc'd or (recently) free'd
==39400== 

 *** caught segfault ***
address 0x5, cause 'memory not mapped'

Traceback:
 1: .Call(`_cpp11armadillotest_eigen_gen_mat`, x)
 2: eigen_gen_mat(x)
An irrecoverable exception occurred. R is aborting now ...
==39400== 
==39400== Process terminating with default action of signal 11 (SIGSEGV)
==39400==    at 0x4D559FC: __pthread_kill_implementation (pthread_kill.c:44)
==39400==    by 0x4D559FC: __pthread_kill_internal (pthread_kill.c:78)
==39400==    by 0x4D559FC: pthread_kill@@GLIBC_2.34 (pthread_kill.c:89)
==39400==    by 0x4D01475: raise (raise.c:26)
==39400==    by 0x4D0151F: ??? (in /usr/lib/x86_64-linux-gnu/libc.so.6)
==39400==    by 0x49E97D3: SETCAR (in /usr/lib/R/lib/libR.so)
==39400== 
==39400== HEAP SUMMARY:
==39400==     in use at exit: 85,757,313 bytes in 19,212 blocks
==39400==   total heap usage: 120,325 allocs, 101,113 frees, 204,680,823 bytes allocated
==39400== 
==39400== LEAK SUMMARY:
==39400==    definitely lost: 0 bytes in 0 blocks
==39400==    indirectly lost: 0 bytes in 0 blocks
==39400==      possibly lost: 5,469 bytes in 25 blocks
==39400==    still reachable: 85,751,844 bytes in 19,187 blocks
==39400==                       of which reachable via heuristic:
==39400==                         newarray           : 4,264 bytes in 1 blocks
==39400==         suppressed: 0 bytes in 0 blocks
==39400== Rerun with --leak-check=full to see details of leaked memory
==39400== 
==39400== ERROR SUMMARY: 4 errors from 4 contexts (suppressed: 0 from 0)
==39400== 
==39400== 1 errors in context 1 of 4:
==39400== Invalid read of size 2
==39400==    at 0x49E97D4: SETCAR (in /usr/lib/R/lib/libR.so)
==39400==    by 0x1389D909: cpp11::._anon_147::release(SEXPREC*) (protect.hpp:302)
==39400==    by 0x138A0921: cpp11::r_vector<double>::~r_vector() (r_vector.hpp:192)
==39400==    by 0x138B4E97: cpp11::matrix<cpp11::r_vector<double>, double, cpp11::by_column>::~matrix() (matrix.hpp:77)
==39400==    by 0x138B46DD: _cpp11armadillotest_eigen_gen_mat (cpp11.cpp:26)
==39400==    by 0x49562DD: ??? (in /usr/lib/R/lib/libR.so)
==39400==    by 0x495685C: ??? (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49AE34F: Rf_eval (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49B1387: ??? (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49AE10F: Rf_eval (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49AFD95: ??? (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49B0BC4: Rf_applyClosure (in /usr/lib/R/lib/libR.so)
==39400==  Address 0x5 is not stack'd, malloc'd or (recently) free'd
==39400== 
==39400== 
==39400== 1 errors in context 2 of 4:
==39400== Use of uninitialised value of size 8
==39400==    at 0x49E9484: CDR (in /usr/lib/R/lib/libR.so)
==39400==    by 0x1389D8DF: cpp11::._anon_147::release(SEXPREC*) (protect.hpp:296)
==39400==    by 0x138A0921: cpp11::r_vector<double>::~r_vector() (r_vector.hpp:192)
==39400==    by 0x138B4E97: cpp11::matrix<cpp11::r_vector<double>, double, cpp11::by_column>::~matrix() (matrix.hpp:77)
==39400==    by 0x138B46DD: _cpp11armadillotest_eigen_gen_mat (cpp11.cpp:26)
==39400==    by 0x49562DD: ??? (in /usr/lib/R/lib/libR.so)
==39400==    by 0x495685C: ??? (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49AE34F: Rf_eval (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49B1387: ??? (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49AE10F: Rf_eval (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49AFD95: ??? (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49B0BC4: Rf_applyClosure (in /usr/lib/R/lib/libR.so)
==39400==  Uninitialised value was created by a stack allocation
==39400==    at 0x138B4623: _cpp11armadillotest_eigen_gen_mat (cpp11.cpp:24)
==39400== 
==39400== 
==39400== 1 errors in context 3 of 4:
==39400== Use of uninitialised value of size 8
==39400==    at 0x49D75FB: CAR (in /usr/lib/R/lib/libR.so)
==39400==    by 0x1389D8CF: cpp11::._anon_147::release(SEXPREC*) (protect.hpp:295)
==39400==    by 0x138A0921: cpp11::r_vector<double>::~r_vector() (r_vector.hpp:192)
==39400==    by 0x138B4E97: cpp11::matrix<cpp11::r_vector<double>, double, cpp11::by_column>::~matrix() (matrix.hpp:77)
==39400==    by 0x138B46DD: _cpp11armadillotest_eigen_gen_mat (cpp11.cpp:26)
==39400==    by 0x49562DD: ??? (in /usr/lib/R/lib/libR.so)
==39400==    by 0x495685C: ??? (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49AE34F: Rf_eval (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49B1387: ??? (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49AE10F: Rf_eval (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49AFD95: ??? (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49B0BC4: Rf_applyClosure (in /usr/lib/R/lib/libR.so)
==39400==  Uninitialised value was created by a stack allocation
==39400==    at 0x138B4623: _cpp11armadillotest_eigen_gen_mat (cpp11.cpp:24)
==39400== 
==39400== 
==39400== 1 errors in context 4 of 4:
==39400== Use of uninitialised value of size 8
==39400==    at 0x49D75F4: CAR (in /usr/lib/R/lib/libR.so)
==39400==    by 0x1389D8CF: cpp11::._anon_147::release(SEXPREC*) (protect.hpp:295)
==39400==    by 0x138A0921: cpp11::r_vector<double>::~r_vector() (r_vector.hpp:192)
==39400==    by 0x138B4E97: cpp11::matrix<cpp11::r_vector<double>, double, cpp11::by_column>::~matrix() (matrix.hpp:77)
==39400==    by 0x138B46DD: _cpp11armadillotest_eigen_gen_mat (cpp11.cpp:26)
==39400==    by 0x49562DD: ??? (in /usr/lib/R/lib/libR.so)
==39400==    by 0x495685C: ??? (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49AE34F: Rf_eval (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49B1387: ??? (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49AE10F: Rf_eval (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49AFD95: ??? (in /usr/lib/R/lib/libR.so)
==39400==    by 0x49B0BC4: Rf_applyClosure (in /usr/lib/R/lib/libR.so)
==39400==  Uninitialised value was created by a stack allocation
==39400==    at 0x138B4623: _cpp11armadillotest_eigen_gen_mat (cpp11.cpp:24)
==39400== 
==39400== ERROR SUMMARY: 4 errors from 4 contexts (suppressed: 0 from 0)

Data types affected

• doubles_matrix<>
• vectors (i.e., writable::doubles and std::vector<double>

[pachadotdev]

here is valgrind output after using debug symbols

==40431== Memcheck, a memory error detector
==40431== Copyright (C) 2002-2017, and GNU GPL'd, by Julian Seward et al.
==40431== Using Valgrind-3.18.1 and LibVEX; rerun with -h for copyright info
==40431== Command: /usr/lib/R/bin/exec/R --vanilla -f dev/debug_list_output.r
==40431== 

R version 4.3.2 (2023-10-31) -- "Eye Holes"
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Platform: x86_64-pc-linux-gnu (64-bit)

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> devtools::load_all()
ℹ Loading cpp11armadillotest
ℹ 5 functions decorated with [[cpp11::register]]
✔ generated file 'cpp11.R'
✔ generated file 'cpp11.cpp'
ℹ Re-compiling cpp11armadillotest (debug build)
── R CMD INSTALL ───────────────────────────────────────────────────────────────
* installing *source* package ‘cpp11armadillotest’ ...
** using staged installation
** libs
using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
g++ -std=gnu++17 -I"/usr/share/R/include" -DNDEBUG -UDEBUG -g -I'/usr/lib/R/site-library/cpp11/include' -I'/home/pacha/R/x86_64-pc-linux-gnu-library/4.3/cpp11armadillo/include'    -Wall -O0 -pedantic -fpic  -g -O2 -ffile-prefix-map=/build/r-base-H0vbME/r-base-4.3.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -UNDEBUG -Wall -pedantic -g -O0 -c 00_main.cpp -o 00_main.o
g++ -std=gnu++17 -I"/usr/share/R/include" -DNDEBUG -UDEBUG -g -I'/usr/lib/R/site-library/cpp11/include' -I'/home/pacha/R/x86_64-pc-linux-gnu-library/4.3/cpp11armadillo/include'    -Wall -O0 -pedantic -fpic  -g -O2 -ffile-prefix-map=/build/r-base-H0vbME/r-base-4.3.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -UNDEBUG -Wall -pedantic -g -O0 -c 02_eigen.cpp -o 02_eigen.o
g++ -std=gnu++17 -I"/usr/share/R/include" -DNDEBUG -UDEBUG -g -I'/usr/lib/R/site-library/cpp11/include' -I'/home/pacha/R/x86_64-pc-linux-gnu-library/4.3/cpp11armadillo/include'    -Wall -O0 -pedantic -fpic  -g -O2 -ffile-prefix-map=/build/r-base-H0vbME/r-base-4.3.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -UNDEBUG -Wall -pedantic -g -O0 -c 03_ols.cpp -o 03_ols.o
g++ -std=gnu++17 -I"/usr/share/R/include" -DNDEBUG -UDEBUG -g -I'/usr/lib/R/site-library/cpp11/include' -I'/home/pacha/R/x86_64-pc-linux-gnu-library/4.3/cpp11armadillo/include'    -Wall -O0 -pedantic -fpic  -g -O2 -ffile-prefix-map=/build/r-base-H0vbME/r-base-4.3.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -UNDEBUG -Wall -pedantic -g -O0 -c cpp11.cpp -o cpp11.o
g++ -std=gnu++17 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o cpp11armadillotest.so 00_main.o 02_eigen.o 03_ols.o cpp11.o -fopenmp -llapack -lblas -lgfortran -lm -lquadmath -L/usr/lib/R/lib -lR
installing to /tmp/RtmpH5kdd4/devtools_install_9def12d224ca/00LOCK-cpp11armadillotest/00new/cpp11armadillotest/libs
** checking absolute paths in shared objects and dynamic libraries
* DONE (cpp11armadillotest)
> 
> x <- cpp11armadillo::mtcars_mat$x
> y <- cpp11armadillo::mtcars_mat$y
> 
> x <- x[, c("wt", "cyl4", "cyl6", "cyl8")]
> 
> x <- cor(x)
> eigen_gen_mat(x)
   2.3758e+00
   2.6803e-01
   1.3562e+00
   1.2797e-16

        0
        0
        0
        0

==40431== Use of uninitialised value of size 8
==40431==    at 0x49D75F4: CAR (in /usr/lib/R/lib/libR.so)
==40431==    by 0x15D458CF: cpp11::._anon_145::release(SEXPREC*) (protect.hpp:295)
==40431==    by 0x15D48921: cpp11::r_vector<double>::~r_vector() (r_vector.hpp:192)
==40431==    by 0x15D5CE97: cpp11::matrix<cpp11::r_vector<double>, double, cpp11::by_column>::~matrix() (matrix.hpp:77)
==40431==    by 0x15D5C6DD: _cpp11armadillotest_eigen_gen_mat (cpp11.cpp:26)
==40431==    by 0x49562DD: ??? (in /usr/lib/R/lib/libR.so)
==40431==    by 0x495685C: ??? (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49AE34F: Rf_eval (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49B1387: ??? (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49AE10F: Rf_eval (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49AFD95: ??? (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49B0BC4: Rf_applyClosure (in /usr/lib/R/lib/libR.so)
==40431==  Uninitialised value was created by a stack allocation
==40431==    at 0x15D5C623: _cpp11armadillotest_eigen_gen_mat (cpp11.cpp:24)
==40431== 
==40431== Use of uninitialised value of size 8
==40431==    at 0x49D75FB: CAR (in /usr/lib/R/lib/libR.so)
==40431==    by 0x15D458CF: cpp11::._anon_145::release(SEXPREC*) (protect.hpp:295)
==40431==    by 0x15D48921: cpp11::r_vector<double>::~r_vector() (r_vector.hpp:192)
==40431==    by 0x15D5CE97: cpp11::matrix<cpp11::r_vector<double>, double, cpp11::by_column>::~matrix() (matrix.hpp:77)
==40431==    by 0x15D5C6DD: _cpp11armadillotest_eigen_gen_mat (cpp11.cpp:26)
==40431==    by 0x49562DD: ??? (in /usr/lib/R/lib/libR.so)
==40431==    by 0x495685C: ??? (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49AE34F: Rf_eval (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49B1387: ??? (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49AE10F: Rf_eval (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49AFD95: ??? (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49B0BC4: Rf_applyClosure (in /usr/lib/R/lib/libR.so)
==40431==  Uninitialised value was created by a stack allocation
==40431==    at 0x15D5C623: _cpp11armadillotest_eigen_gen_mat (cpp11.cpp:24)
==40431== 
==40431== Use of uninitialised value of size 8
==40431==    at 0x49E9484: CDR (in /usr/lib/R/lib/libR.so)
==40431==    by 0x15D458DF: cpp11::._anon_145::release(SEXPREC*) (protect.hpp:296)
==40431==    by 0x15D48921: cpp11::r_vector<double>::~r_vector() (r_vector.hpp:192)
==40431==    by 0x15D5CE97: cpp11::matrix<cpp11::r_vector<double>, double, cpp11::by_column>::~matrix() (matrix.hpp:77)
==40431==    by 0x15D5C6DD: _cpp11armadillotest_eigen_gen_mat (cpp11.cpp:26)
==40431==    by 0x49562DD: ??? (in /usr/lib/R/lib/libR.so)
==40431==    by 0x495685C: ??? (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49AE34F: Rf_eval (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49B1387: ??? (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49AE10F: Rf_eval (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49AFD95: ??? (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49B0BC4: Rf_applyClosure (in /usr/lib/R/lib/libR.so)
==40431==  Uninitialised value was created by a stack allocation
==40431==    at 0x15D5C623: _cpp11armadillotest_eigen_gen_mat (cpp11.cpp:24)
==40431== 
==40431== Invalid read of size 1
==40431==    at 0x49E9A40: SETCDR (in /usr/lib/R/lib/libR.so)
==40431==    by 0x15D458F6: cpp11::._anon_145::release(SEXPREC*) (protect.hpp:301)
==40431==    by 0x15D48921: cpp11::r_vector<double>::~r_vector() (r_vector.hpp:192)
==40431==    by 0x15D5CE97: cpp11::matrix<cpp11::r_vector<double>, double, cpp11::by_column>::~matrix() (matrix.hpp:77)
==40431==    by 0x15D5C6DD: _cpp11armadillotest_eigen_gen_mat (cpp11.cpp:26)
==40431==    by 0x49562DD: ??? (in /usr/lib/R/lib/libR.so)
==40431==    by 0x495685C: ??? (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49AE34F: Rf_eval (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49B1387: ??? (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49AE10F: Rf_eval (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49AFD95: ??? (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49B0BC4: Rf_applyClosure (in /usr/lib/R/lib/libR.so)
==40431==  Address 0x111000002 is not stack'd, malloc'd or (recently) free'd
==40431== 

 *** caught segfault ***
address 0x111000002, cause 'memory not mapped'

Traceback:
 1: .Call(`_cpp11armadillotest_eigen_gen_mat`, x)
 2: eigen_gen_mat(x)
An irrecoverable exception occurred. R is aborting now ...
==40431== 
==40431== Process terminating with default action of signal 11 (SIGSEGV)
==40431==    at 0x4D559FC: __pthread_kill_implementation (pthread_kill.c:44)
==40431==    by 0x4D559FC: __pthread_kill_internal (pthread_kill.c:78)
==40431==    by 0x4D559FC: pthread_kill@@GLIBC_2.34 (pthread_kill.c:89)
==40431==    by 0x4D01475: raise (raise.c:26)
==40431==    by 0x4D0151F: ??? (in /usr/lib/x86_64-linux-gnu/libc.so.6)
==40431==    by 0x49E9A3F: SETCDR (in /usr/lib/R/lib/libR.so)
==40431== 
==40431== HEAP SUMMARY:
==40431==     in use at exit: 105,761,591 bytes in 21,349 blocks
==40431==   total heap usage: 166,991 allocs, 145,642 frees, 267,961,699 bytes allocated
==40431== 
==40431== LEAK SUMMARY:
==40431==    definitely lost: 0 bytes in 0 blocks
==40431==    indirectly lost: 0 bytes in 0 blocks
==40431==      possibly lost: 7,151 bytes in 85 blocks
==40431==    still reachable: 105,754,440 bytes in 21,264 blocks
==40431==                       of which reachable via heuristic:
==40431==                         newarray           : 4,264 bytes in 1 blocks
==40431==         suppressed: 0 bytes in 0 blocks
==40431== Rerun with --leak-check=full to see details of leaked memory
==40431== 
==40431== ERROR SUMMARY: 4 errors from 4 contexts (suppressed: 0 from 0)
==40431== 
==40431== 1 errors in context 1 of 4:
==40431== Invalid read of size 1
==40431==    at 0x49E9A40: SETCDR (in /usr/lib/R/lib/libR.so)
==40431==    by 0x15D458F6: cpp11::._anon_145::release(SEXPREC*) (protect.hpp:301)
==40431==    by 0x15D48921: cpp11::r_vector<double>::~r_vector() (r_vector.hpp:192)
==40431==    by 0x15D5CE97: cpp11::matrix<cpp11::r_vector<double>, double, cpp11::by_column>::~matrix() (matrix.hpp:77)
==40431==    by 0x15D5C6DD: _cpp11armadillotest_eigen_gen_mat (cpp11.cpp:26)
==40431==    by 0x49562DD: ??? (in /usr/lib/R/lib/libR.so)
==40431==    by 0x495685C: ??? (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49AE34F: Rf_eval (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49B1387: ??? (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49AE10F: Rf_eval (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49AFD95: ??? (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49B0BC4: Rf_applyClosure (in /usr/lib/R/lib/libR.so)
==40431==  Address 0x111000002 is not stack'd, malloc'd or (recently) free'd
==40431== 
==40431== 
==40431== 1 errors in context 2 of 4:
==40431== Use of uninitialised value of size 8
==40431==    at 0x49E9484: CDR (in /usr/lib/R/lib/libR.so)
==40431==    by 0x15D458DF: cpp11::._anon_145::release(SEXPREC*) (protect.hpp:296)
==40431==    by 0x15D48921: cpp11::r_vector<double>::~r_vector() (r_vector.hpp:192)
==40431==    by 0x15D5CE97: cpp11::matrix<cpp11::r_vector<double>, double, cpp11::by_column>::~matrix() (matrix.hpp:77)
==40431==    by 0x15D5C6DD: _cpp11armadillotest_eigen_gen_mat (cpp11.cpp:26)
==40431==    by 0x49562DD: ??? (in /usr/lib/R/lib/libR.so)
==40431==    by 0x495685C: ??? (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49AE34F: Rf_eval (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49B1387: ??? (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49AE10F: Rf_eval (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49AFD95: ??? (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49B0BC4: Rf_applyClosure (in /usr/lib/R/lib/libR.so)
==40431==  Uninitialised value was created by a stack allocation
==40431==    at 0x15D5C623: _cpp11armadillotest_eigen_gen_mat (cpp11.cpp:24)
==40431== 
==40431== 
==40431== 1 errors in context 3 of 4:
==40431== Use of uninitialised value of size 8
==40431==    at 0x49D75FB: CAR (in /usr/lib/R/lib/libR.so)
==40431==    by 0x15D458CF: cpp11::._anon_145::release(SEXPREC*) (protect.hpp:295)
==40431==    by 0x15D48921: cpp11::r_vector<double>::~r_vector() (r_vector.hpp:192)
==40431==    by 0x15D5CE97: cpp11::matrix<cpp11::r_vector<double>, double, cpp11::by_column>::~matrix() (matrix.hpp:77)
==40431==    by 0x15D5C6DD: _cpp11armadillotest_eigen_gen_mat (cpp11.cpp:26)
==40431==    by 0x49562DD: ??? (in /usr/lib/R/lib/libR.so)
==40431==    by 0x495685C: ??? (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49AE34F: Rf_eval (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49B1387: ??? (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49AE10F: Rf_eval (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49AFD95: ??? (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49B0BC4: Rf_applyClosure (in /usr/lib/R/lib/libR.so)
==40431==  Uninitialised value was created by a stack allocation
==40431==    at 0x15D5C623: _cpp11armadillotest_eigen_gen_mat (cpp11.cpp:24)
==40431== 
==40431== 
==40431== 1 errors in context 4 of 4:
==40431== Use of uninitialised value of size 8
==40431==    at 0x49D75F4: CAR (in /usr/lib/R/lib/libR.so)
==40431==    by 0x15D458CF: cpp11::._anon_145::release(SEXPREC*) (protect.hpp:295)
==40431==    by 0x15D48921: cpp11::r_vector<double>::~r_vector() (r_vector.hpp:192)
==40431==    by 0x15D5CE97: cpp11::matrix<cpp11::r_vector<double>, double, cpp11::by_column>::~matrix() (matrix.hpp:77)
==40431==    by 0x15D5C6DD: _cpp11armadillotest_eigen_gen_mat (cpp11.cpp:26)
==40431==    by 0x49562DD: ??? (in /usr/lib/R/lib/libR.so)
==40431==    by 0x495685C: ??? (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49AE34F: Rf_eval (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49B1387: ??? (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49AE10F: Rf_eval (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49AFD95: ??? (in /usr/lib/R/lib/libR.so)
==40431==    by 0x49B0BC4: Rf_applyClosure (in /usr/lib/R/lib/libR.so)
==40431==  Uninitialised value was created by a stack allocation
==40431==    at 0x15D5C623: _cpp11armadillotest_eigen_gen_mat (cpp11.cpp:24)
==40431== 
==40431== ERROR SUMMARY: 4 errors from 4 contexts (suppressed: 0 from 0)