* installing *source* package ‘SpatMCA’ ...
** this is package ‘SpatMCA’ version ‘1.0.4’
** package ‘SpatMCA’ 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/SpatMCA/src'
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-dev/RcppParallel/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
In file included from /data/gannet/ripley/R/test-dev/RcppArmadillo/include/RcppArmadillo.h:29,
from RcppExports.cpp:4:
/data/gannet/ripley/R/test-dev/RcppArmadillo/include/RcppArmadillo/version/arma.h:71:153: note: ‘#pragma message: Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.’
71 | #pragma message("Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.")
| ^
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-dev/RcppParallel/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 RcppSpatMCA.cpp -o RcppSpatMCA.o
In file included from /data/gannet/ripley/R/test-dev/RcppArmadillo/include/RcppArmadillo.h:29,
from RcppSpatMCA.cpp:5:
/data/gannet/ripley/R/test-dev/RcppArmadillo/include/RcppArmadillo/version/arma.h:71:153: note: ‘#pragma message: Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.’
71 | #pragma message("Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.")
| ^
RcppSpatMCA.cpp: In function ‘arma::mat cubicmatrix(arma::vec)’:
RcppSpatMCA.cpp:27:26: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
27 | for (unsigned j = 0; j < p - 2; ++j)
| ~~^~~~~~~
RcppSpatMCA.cpp:34:26: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
34 | for (unsigned j = 0; j < p - 3; ++j)
| ~~^~~~~~~
RcppSpatMCA.cpp: In member function ‘virtual void tpm::operator()(std::size_t, std::size_t)’:
RcppSpatMCA.cpp:51:30: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
51 | for (unsigned j = 0; j < p; j++)
| ~~^~~
RcppSpatMCA.cpp:76:30: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
76 | for (unsigned k = 0; k < d; ++k)
| ~~^~~
RcppSpatMCA.cpp: In function ‘arma::mat tpm2(arma::mat, arma::mat, arma::mat)’:
RcppSpatMCA.cpp:126:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
126 | for (unsigned newi = 0; newi < pnew; newi++)
| ~~~~~^~~~~~
RcppSpatMCA.cpp:128:28: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
128 | for (unsigned i = 0; i < K; i++)
| ~~^~~
RcppSpatMCA.cpp:131:30: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
131 | for (unsigned j = 0; j < p; j++)
| ~~^~~
RcppSpatMCA.cpp: In function ‘void spatmca_tau1(arma::mat&, arma::mat&, arma::mat&, arma::mat, int, int, double, int, double)’:
RcppSpatMCA.cpp:172:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘const int’ [-Wsign-compare]
172 | for (unsigned iter = 0; iter < maxit; iter++)
| ~~~~~^~~~~~~
RcppSpatMCA.cpp: In function ‘void spatmca_tau2(arma::mat&, arma::mat&, arma::mat&, arma::mat&, arma::mat&, arma::mat, double, double, int, int, double, int, double)’:
RcppSpatMCA.cpp:207:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘const int’ [-Wsign-compare]
207 | for (unsigned iter = 0; iter < maxit; iter++)
| ~~~~~^~~~~~~
RcppSpatMCA.cpp: In function ‘Rcpp::List spatmcacv_rcpp(Rcpp::NumericMatrix, Rcpp::NumericMatrix, Rcpp::NumericMatrix, Rcpp::NumericMatrix, int, int, Rcpp::NumericVector, Rcpp::NumericVector, Rcpp::NumericVector, Rcpp::NumericVector, Rcpp::NumericVector, int, double, Rcpp::NumericVector, Rcpp::NumericVector)’:
RcppSpatMCA.cpp:639:25: warning: comparison of integer expressions of different signedness: ‘arma::uword’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare]
639 | for (uword m = 0; m < M; m++)
| ~~^~~
RcppSpatMCA.cpp:700:25: warning: comparison of integer expressions of different signedness: ‘arma::uword’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare]
700 | for (uword m = 0; m < M; m++)
| ~~^~~
RcppSpatMCA.cpp: In function ‘Rcpp::List spatmcacvall_rcpp(Rcpp::NumericMatrix, Rcpp::NumericMatrix, Rcpp::NumericMatrix, Rcpp::NumericMatrix, int, int, Rcpp::NumericVector, Rcpp::NumericVector, Rcpp::NumericVector, Rcpp::NumericVector, Rcpp::NumericVector, int, double, Rcpp::NumericVector, Rcpp::NumericVector)’:
RcppSpatMCA.cpp:928:23: warning: comparison of integer expressions of different signedness: ‘arma::uword’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare]
928 | for (uword m = 0; m < M; m++)
| ~~^~~
In file included from /data/gannet/ripley/R/test-dev/RcppArmadillo/include/legacy/armadillo:673,
from /data/gannet/ripley/R/test-dev/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:80,
from /data/gannet/ripley/R/test-dev/RcppArmadillo/include/RcppArmadillo.h:32:
In member function ‘arma::Mat<eT>& arma::Mat<eT>::operator=(eT) [with eT = double]’,
inlined from ‘Rcpp::List spatmcacv_rcpp(Rcpp::NumericMatrix, Rcpp::NumericMatrix, Rcpp::NumericMatrix, Rcpp::NumericMatrix, int, int, Rcpp::NumericVector, Rcpp::NumericVector, Rcpp::NumericVector, Rcpp::NumericVector, Rcpp::NumericVector, int, double, Rcpp::NumericVector, Rcpp::NumericVector)’ at RcppSpatMCA.cpp:690:12:
/data/gannet/ripley/R/test-dev/RcppArmadillo/include/legacy/armadillo_bits/Mat_meat.hpp:816:22: warning: ‘tempout’ may be used uninitialized [-Wmaybe-uninitialized]
816 | access::rw(mem[0]) = val;
| ~~~~~~~~~~~~~~~~~~~^~~~~
RcppSpatMCA.cpp: In function ‘Rcpp::List spatmcacv_rcpp(Rcpp::NumericMatrix, Rcpp::NumericMatrix, Rcpp::NumericMatrix, Rcpp::NumericMatrix, int, int, Rcpp::NumericVector, Rcpp::NumericVector, Rcpp::NumericVector, Rcpp::NumericVector, Rcpp::NumericVector, int, double, Rcpp::NumericVector, Rcpp::NumericVector)’:
RcppSpatMCA.cpp:583:46: note: ‘tempout’ was declared here
583 | double cvtau1u, cvtau1v, cvtau2u, cvtau2v, tempout;
| ^~~~~~~
g++ -std=gnu++17 -shared -L/usr/local/lib64 -o SpatMCA.so RcppExports.o RcppSpatMCA.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/SpatMCA/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/SpatMCA/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/SpatMCA/src'
installing to /data/gannet/ripley/R/packages/tests-devel/SpatMCA.Rcheck/00LOCK-SpatMCA/00new/SpatMCA/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 (SpatMCA)