* installing *source* package ‘sorcering’ ...
** this is package ‘sorcering’ version ‘1.2.0’
** package ‘sorcering’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘clang version 21.1.1’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/sorcering/src'
/usr/local/clang21/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -isystem /usr/local/clang21/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw   -c RcppExports.cpp -o RcppExports.o
/usr/local/clang21/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -isystem /usr/local/clang21/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw   -c sorcering.cpp -o sorcering.o
sorcering.cpp:2294:92: warning: 'from<double, arma::eGlue<arma::subview_elem1<double, arma::mtOp<unsigned int, arma::mtOp<unsigned int, arma::Col<double>, arma::op_rel_eq>, arma::op_find>>, arma::subview_elem1<double, arma::mtOp<unsigned int, arma::mtOp<unsigned int, arma::Col<double>, arma::op_rel_eq>, arma::op_find>>, arma::eglue_div>>' is deprecated: replace conv_to<...>::from(X) with as_scalar(X) [-Wdeprecated-declarations]
 2294 |                                                             CNbio = arma::conv_to<double>::from( C0_arma.elem(find(pt_arma==2,1))/N0_arma.elem(find(pt_arma==2,1)) );
      |                                                                                            ^
/data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo_bits/fn_conv_to.hpp:33:5: note: 'from<double, arma::eGlue<arma::subview_elem1<double, arma::mtOp<unsigned int, arma::mtOp<unsigned int, arma::Col<double>, arma::op_rel_eq>, arma::op_find>>, arma::subview_elem1<double, arma::mtOp<unsigned int, arma::mtOp<unsigned int, arma::Col<double>, arma::op_rel_eq>, arma::op_find>>, arma::eglue_div>>' has been explicitly marked deprecated here
   33 |   [[deprecated("replace conv_to<...>::from(X) with as_scalar(X)")]] inline static out_eT from(const Base<in_eT, T1>& in, const typename arma_not_cx<in_eT>::result* junk = nullptr);
      |     ^
sorcering.cpp:2329:95: warning: 'from<double, arma::eGlue<arma::subview_elem1<double, arma::mtOp<unsigned int, arma::mtOp<unsigned int, arma::Col<double>, arma::op_rel_eq>, arma::op_find>>, arma::subview_elem1<double, arma::mtOp<unsigned int, arma::mtOp<unsigned int, arma::Col<double>, arma::op_rel_eq>, arma::op_find>>, arma::eglue_div>>' is deprecated: replace conv_to<...>::from(X) with as_scalar(X) [-Wdeprecated-declarations]
 2329 |                                                         double CNres = arma::conv_to<double>::from( C0_arma.elem(find(pt_arma==3,1)) / N0_arma.elem(find(pt_arma==3,1)) );
      |                                                                                               ^
/data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo_bits/fn_conv_to.hpp:33:5: note: 'from<double, arma::eGlue<arma::subview_elem1<double, arma::mtOp<unsigned int, arma::mtOp<unsigned int, arma::Col<double>, arma::op_rel_eq>, arma::op_find>>, arma::subview_elem1<double, arma::mtOp<unsigned int, arma::mtOp<unsigned int, arma::Col<double>, arma::op_rel_eq>, arma::op_find>>, arma::eglue_div>>' has been explicitly marked deprecated here
   33 |   [[deprecated("replace conv_to<...>::from(X) with as_scalar(X)")]] inline static out_eT from(const Base<in_eT, T1>& in, const typename arma_not_cx<in_eT>::result* junk = nullptr);
      |     ^
2 warnings generated.
/usr/local/clang21/bin/clang++ -std=gnu++17 -shared -L/usr/local/clang/lib64 -L/usr/local/clang21/lib -L/usr/local/clang21/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -L/usr/local/clang21/lib/clang/21/lib/x86_64-unknown-linux-gnu -o sorcering.so RcppExports.o sorcering.o -L/data/gannet/ripley/R/R-clang/lib -lRlapack -L/data/gannet/ripley/R/R-clang/lib -lRblas -lflang_rt.runtime -lm
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/sorcering/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/sorcering/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/sorcering/src'
installing to /data/gannet/ripley/R/packages/tests-clang/sorcering.Rcheck/00LOCK-sorcering/00new/sorcering/libs
** R
** data
*** moving datasets to lazyload DB
** 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 (sorcering)