* installing *source* package ‘communication’ ...
** this is package ‘communication’ version ‘0.1’
** package ‘communication’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
specified C++11
using C++ compiler: ‘clang version 21.1.8’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/communication/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   -fopenmp -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   -fopenmp -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw   -c hmm.cpp -o hmm.o
hmm.cpp:1079:26: warning: 'max' is deprecated: use .index_max() instead [-Wdeprecated-declarations]
 1079 |     lxis[i].col(Ts[i]-1).max(k_T); // (state mle @ T | xi) -> k_T
      |                          ^
/data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo_bits/subview_bones.hpp:440:5: note: 'max' has been explicitly marked deprecated here
  440 |   [[deprecated("use .index_max() instead")]] inline eT max(uword& index_of_max_val) const;
      |     ^
hmm.cpp:1084:54: warning: 'max' is deprecated: use .index_max() instead [-Wdeprecated-declarations]
 1084 |       (lxis[i].col(t-1) + lGamma.col(revseq.back())).max(k); // (state mle @ t-1 | xi, state @ t) -> k
      |                                                      ^
/data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo_bits/Base_bones.hpp:131:5: note: 'max' has been explicitly marked deprecated here
  131 |   [[deprecated("use .index_max() instead")]] inline elem_type max(uword& index_of_max_val) const;
      |     ^
2 warnings generated.
/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   -fopenmp -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw   -c isSilent.cpp -o isSilent.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   -fopenmp -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw   -c notSilence.cpp -o notSilence.o
/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 -o communication.so RcppExports.o hmm.o isSilent.o notSilence.o -fopenmp -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/communication/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/communication/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/communication/src'
installing to /data/gannet/ripley/R/packages/tests-clang/communication.Rcheck/00LOCK-communication/00new/communication/libs
** R
** data
** 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 (communication)