* installing *source* package ‘fastadi’ ...
** this is package ‘fastadi’ version ‘0.1.2’
** package ‘fastadi’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++ (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/fastadi/src'
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c masked_approximation_impl.cpp -o masked_approximation_impl.o
In file included from /data/gannet/ripley/R/test-dev/Rcpp/include/Rcpp.h:47,
from /data/gannet/ripley/R/test-dev/RcppArmadillo/include/RcppArmadillo.h:32,
from RcppExports.cpp:5:
/data/gannet/ripley/R/test-dev/Rcpp/include/Rcpp/XPtr.h: In instantiation of ‘void Rcpp::standard_delete_finalizer(T*) [with T = CitationEstimate]’:
RcppExports.cpp:125:28: required from here
125 | Rcpp::XPtr<CitationEstimate> makeCitationEstimate(arma::sp_mat citations, arma::mat U, arma::rowvec d, arma::mat V);
| ^
/data/gannet/ripley/R/test-dev/Rcpp/include/Rcpp/XPtr.h:31:5: warning: possible problem detected in invocation of ‘operator delete’ [-Wdelete-incomplete]
31 | delete obj;
| ^~~~~~~~~~
/data/gannet/ripley/R/test-dev/Rcpp/include/Rcpp/XPtr.h:30:35: warning: ‘obj’ has incomplete type
30 | void standard_delete_finalizer(T* obj) { // #nocov start
| ~~~^~~
In file included from RcppExports.cpp:4:
fastadi_types.h:12:7: note: forward declaration of ‘class CitationEstimate’
12 | class CitationEstimate;
| ^~~~~~~~~~~~~~~~
/data/gannet/ripley/R/test-dev/Rcpp/include/Rcpp/XPtr.h:31:5: note: neither the destructor nor the class-specific ‘operator delete’ will be called, even if they are declared when the class is defined
31 | delete obj;
| ^~~~~~~~~~
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c p_omega_f_norm_ut_impl.cpp -o p_omega_f_norm_ut_impl.o
masked_approximation_impl.cpp: In function ‘arma::sp_mat masked_approximation_impl(const arma::mat&, const arma::mat&, const arma::vec&, const arma::vec&)’:
masked_approximation_impl.cpp:40:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
40 | for (int idx = 0; idx < row.n_elem; idx++) {
| ~~~~^~~~~~~~~~~~
p_omega_f_norm_ut_impl.cpp: In function ‘double p_omega_f_norm_ut_impl(const arma::mat&, const arma::rowvec&, const arma::mat&, const arma::vec&, const arma::vec&, int)’:
p_omega_f_norm_ut_impl.cpp:31:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
31 | for (int idx = 0; idx < row.n_elem; idx++) {
| ~~~~^~~~~~~~~~~~
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c p_u_tilde_ztx_impl.cpp -o p_u_tilde_ztx_impl.o
p_u_tilde_ztx_impl.cpp: In function ‘arma::vec p_u_tilde_ztx_impl(const arma::mat&, const arma::rowvec&, const arma::mat&, const arma::vec&, const arma::vec&, const arma::vec&)’:
p_u_tilde_ztx_impl.cpp:21:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
21 | for (int idx = 0; idx < row.n_elem; idx++) {
| ~~~~^~~~~~~~~~~~
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c p_u_tilde_zx_impl.cpp -o p_u_tilde_zx_impl.o
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c p_u_ztx_impl.cpp -o p_u_ztx_impl.o
p_u_tilde_zx_impl.cpp: In function ‘arma::vec p_u_tilde_zx_impl(const arma::mat&, const arma::rowvec&, const arma::mat&, const arma::vec&, const arma::vec&, const arma::vec&)’:
p_u_tilde_zx_impl.cpp:22:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
22 | for (int idx = 0; idx < row.n_elem; idx++) {
| ~~~~^~~~~~~~~~~~
p_u_ztx_impl.cpp: In function ‘arma::vec p_u_ztx_impl(const arma::mat&, const arma::vec&, const arma::mat&, const arma::vec&, int)’:
p_u_ztx_impl.cpp:29:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
29 | for (int i = 0; i < S.n_rows; i++) {
| ~~^~~~~~~~~~
p_u_ztx_impl.cpp:43:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
43 | for (int i = 0; i < V.n_rows; i++) {
| ~~^~~~~~~~~~
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c p_u_zx_impl.cpp -o p_u_zx_impl.o
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c relative_f_norm_change_impl.cpp -o relative_f_norm_change_impl.o
p_u_zx_impl.cpp: In function ‘arma::vec p_u_zx_impl(const arma::mat&, const arma::vec&, const arma::mat&, const arma::vec&, int)’:
p_u_zx_impl.cpp:29:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
29 | for (int j = 0; j < W.n_cols; j++) {
| ~~^~~~~~~~~~
p_u_zx_impl.cpp:53:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
53 | for (int j = 0; j < U.n_rows; j++) {
| ~~^~~~~~~~~~
relative_f_norm_change_impl.cpp: In function ‘double relative_f_norm_change_impl(const arma::mat&, const arma::rowvec&, const arma::mat&, const arma::mat&, const arma::rowvec&, const arma::mat&, int)’:
relative_f_norm_change_impl.cpp:36:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
36 | for (int i = 0; i < U.n_rows; i++) {
| ~~^~~~~~~~~~
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c scratch.cpp -o scratch.o
scratch.cpp: In member function ‘arma::vec CitationEstimate::left_multiply(arma::vec)’:
scratch.cpp:42:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
42 | for (int j = 0; j < W.n_cols; j++) {
| ~~^~~~~~~~~~
scratch.cpp:62:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
62 | for (int j = 0; j < U.n_rows; j++) {
| ~~^~~~~~~~~~
scratch.cpp: In member function ‘arma::vec CitationEstimate::right_multiply(arma::vec)’:
scratch.cpp:113:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
113 | for (int i = 0; i < S.n_rows; i++) {
| ~~^~~~~~~~~~
scratch.cpp:123:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
123 | for (int i = 0; i < V.n_rows; i++) {
| ~~^~~~~~~~~~
g++ -std=gnu++17 -shared -L/usr/local/lib64 -o fastadi.so RcppExports.o masked_approximation_impl.o p_omega_f_norm_ut_impl.o p_u_tilde_ztx_impl.o p_u_tilde_zx_impl.o p_u_ztx_impl.o p_u_zx_impl.o relative_f_norm_change_impl.o scratch.o -fopenmp -llapack -L/data/gannet/ripley/R/R-devel/lib -lRblas -lgfortran -lm -lquadmath
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/fastadi/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/fastadi/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/fastadi/src'
installing to /data/gannet/ripley/R/packages/tests-devel/fastadi.Rcheck/00LOCK-fastadi/00new/fastadi/libs
** R
** 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 (fastadi)