* installing *source* package ‘cord’ ...
** this is package ‘cord’ version ‘0.1.1’
** package ‘cord’ 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/cord/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 cordDist.cpp -o cordDist.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 greedyCord.cpp -o greedyCord.o
greedyCord.cpp:4:1172: warning: 'min' is deprecated: use .index_min() with ind2sub() instead [-Wdeprecated-declarations]
4 | arma::uvec greedyCord(arma::mat v02129bb861061d1a052c592e2dc6b383, double v4580c2740ab6d9222ef06d7c6865583e) {int v83878c91171338902e0fe0fb97a8c47a = v02129bb861061d1a052c592e2dc6b383.n_cols;arma::uvec ee974440bab5a1dc05dde8536988d885(v83878c91171338902e0fe0fb97a8c47a);ee974440bab5a1dc05dde8536988d885.zeros();if (v83878c91171338902e0fe0fb97a8c47a < (0x1385+769-0x1684) ) {ee974440bab5a1dc05dde8536988d885(v83878c91171338902e0fe0fb97a8c47a) = (0x655+7951-0x2563);return ee974440bab5a1dc05dde8536988d885;}arma::uvec v28ae36c54d8eeb57004e7441326dc33f(v83878c91171338902e0fe0fb97a8c47a);v28ae36c54d8eeb57004e7441326dc33f.ones();arma::uvec v3691308f2a4c2f6983f2880d32e29c84 = find(v28ae36c54d8eeb57004e7441326dc33f>0);bool v9d87849a9b22151e61cd97456c5f6181 = true;int v728fa97a6bea8eee114d6eb53a75b06d = (0x46b+8015-0x23b9);while(v9d87849a9b22151e61cd97456c5f6181){arma::mat v69691c7bdcc3ce6d5d8a1361f22d04ac = v02129bb861061d1a052c592e2dc6b383(v3691308f2a4c2f6983f2880d32e29c84, v3691308f2a4c2f6983f2880d32e29c84);arma::uword e48711dee325da37713a959d9f9b10f5, v4eae90b69d71773f9a86d95169593da3;double v843a28dfdc5b2d5463ba2a7b83fdec7c = v69691c7bdcc3ce6d5d8a1361f22d04ac.min(e48711dee325da37713a959d9f9b10f5, v4eae90b69d71773f9a86d95169593da3);bool v3737742d27522b3e8913f2ae1e52454e = v843a28dfdc5b2d5463ba2a7b83fdec7c <= v4580c2740ab6d9222ef06d7c6865583e;if (v728fa97a6bea8eee114d6eb53a75b06d % (0x18d4+2460-0x1e88) == (0x934+7110-0x24fa)) Rcpp::checkUserInterrupt();if (v3737742d27522b3e8913f2ae1e52454e){arma::uvec v8ddf878039b70767c4a5bcf4f0c4f65e = v3691308f2a4c2f6983f2880d32e29c84( find(v69691c7bdcc3ce6d5d8a1361f22d04ac.row(e48711dee325da37713a959d9f9b10f5) <= v4580c2740ab6d9222ef06d7c6865583e) );arma::uvec fac989447cad2edbc89fbcba70003b36 = v3691308f2a4c2f6983f2880d32e29c84( find(v69691c7bdcc3ce6d5d8a1361f22d04ac.col(v4eae90b69d71773f9a86d95169593da3) <= v4580c2740ab6d9222ef06d7c6865583e) );v28ae36c54d8eeb57004e7441326dc33f(v8ddf878039b70767c4a5bcf4f0c4f65e).zeros();v28ae36c54d8eeb57004e7441326dc33f(fac989447cad2edbc89fbcba70003b36).zeros();v3691308f2a4c2f6983f2880d32e29c84 = find(v28ae36c54d8eeb57004e7441326dc33f>0);ee974440bab5a1dc05dde8536988d885(v8ddf878039b70767c4a5bcf4f0c4f65e).fill(v728fa97a6bea8eee114d6eb53a75b06d); ee974440bab5a1dc05dde8536988d885(fac989447cad2edbc89fbcba70003b36).fill(v728fa97a6bea8eee114d6eb53a75b06d);} else {for (int i=0; i<v3691308f2a4c2f6983f2880d32e29c84.n_elem; i++) {ee974440bab5a1dc05dde8536988d885(v3691308f2a4c2f6983f2880d32e29c84(i)) = v728fa97a6bea8eee114d6eb53a75b06d + i;}return ee974440bab5a1dc05dde8536988d885;} v728fa97a6bea8eee114d6eb53a75b06d += (0x528+3196-0x11a3);double c97b334ffd41ea4997083f1949632bc1 = sum(v28ae36c54d8eeb57004e7441326dc33f);if (c97b334ffd41ea4997083f1949632bc1 <1.1 && c97b334ffd41ea4997083f1949632bc1 >0.9) {v9d87849a9b22151e61cd97456c5f6181 = false;ee974440bab5a1dc05dde8536988d885(find(v28ae36c54d8eeb57004e7441326dc33f>0)).fill(v728fa97a6bea8eee114d6eb53a75b06d);}if (c97b334ffd41ea4997083f1949632bc1 <0.9) {v9d87849a9b22151e61cd97456c5f6181 = false;}}return ee974440bab5a1dc05dde8536988d885;}
| ^
/data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo_bits/Mat_bones.hpp:547:5: note: 'min' has been explicitly marked deprecated here
547 | [[deprecated("use .index_min() with ind2sub() instead")]] inline eT min(uword& row_of_min_val, uword& col_of_min_val) const;
| ^
1 warning 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 cord.so RcppExports.o cordDist.o greedyCord.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/cord/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/cord/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/cord/src'
installing to /data/gannet/ripley/R/packages/tests-clang/cord.Rcheck/00LOCK-cord/00new/cord/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 (cord)