* installing *source* package ‘rSpectral’ ...
** this is package ‘rSpectral’ version ‘1.0.0.14’
** package ‘rSpectral’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘clang version 21.1.7’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/rSpectral/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 SpectralModularity.cpp -o SpectralModularity.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 edge.cpp -o edge.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 network.cpp -o network.o
SpectralModularity.cpp:88:12: warning: variable 'KK' set but not used [-Wunused-but-set-variable]
   88 |   int k,Ng,KK;
      |            ^
SpectralModularity.cpp:197:7: warning: unused variable 'i' [-Wunused-variable]
  197 |   int i,k,Ng,KK; 
      |       ^
SpectralModularity.cpp:258:10: warning: variable 'sum' set but not used [-Wunused-but-set-variable]
  258 |   double sum=0.0;
      |          ^
SpectralModularity.cpp:284:7: warning: unused variable 'i' [-Wunused-variable]
  284 |   int i,j,k,K,KK,Ng,indx_max;
      |       ^
SpectralModularity.cpp:284:9: warning: unused variable 'j' [-Wunused-variable]
  284 |   int i,j,k,K,KK,Ng,indx_max;
      |         ^
SpectralModularity.cpp:284:15: warning: variable 'KK' set but not used [-Wunused-but-set-variable]
  284 |   int i,j,k,K,KK,Ng,indx_max;
      |               ^
SpectralModularity.cpp:284:21: warning: unused variable 'indx_max' [-Wunused-variable]
  284 |   int i,j,k,K,KK,Ng,indx_max;
      |                     ^~~~~~~~
SpectralModularity.cpp:285:8: warning: variable 'status' set but not used [-Wunused-but-set-variable]
  285 |   bool status;
      |        ^
SpectralModularity.cpp:404:11: warning: unused variable 'J' [-Wunused-variable]
  404 |   int i,j,J,k,KK,Ng;
      |           ^
SpectralModularity.cpp:404:15: warning: variable 'KK' set but not used [-Wunused-but-set-variable]
  404 |   int i,j,J,k,KK,Ng;
      |               ^
SpectralModularity.cpp:566:30: warning: variable 'sFixed' set but not used [-Wunused-but-set-variable]
  566 |   int u,v,i,Ng,node_K,neig_K,sFixed;
      |                              ^
SpectralModularity.cpp:604:34: warning: variable 'sFixed' set but not used [-Wunused-but-set-variable]
  604 |   int u,v,i,j,k,Ng,node_K,neig_K,sFixed;
      |                                  ^
SpectralModularity.cpp:823:9: warning: unused variable 'count' [-Wunused-variable]
  823 |     int count   = 0;
      |         ^~~~~
SpectralModularity.cpp:1057:13: warning: unused variable 'p' [-Wunused-variable]
 1057 |   int i,j,k,p,KK,Ng;
      |             ^
/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 rSpectral.cpp -o rSpectral.o
In file included from SpectralModularity.cpp:1:
./SpectralModularity.h:73:10: warning: private field 'usedBgi' is not used [-Wunused-private-field]
   73 |   bool   usedBgi;
      |          ^
/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 readfile.cpp -o readfile.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 vertex.cpp -o vertex.o
rSpectral.cpp:275:11: warning: unused variable 'cal' [-Wunused-variable]
  275 |       int cal = model->calculateSpectralModularity();
      |           ^~~
rSpectral.cpp:218:7: warning: variable 'alphaNumeric' set but not used [-Wunused-but-set-variable]
  218 |   int alphaNumeric = 1;
      |       ^
15 warnings generated.
2 warnings generated.
readfile.cpp:358:7: warning: variable 'i' set but not used [-Wunused-but-set-variable]
  358 |   int i,j,k,KK;
      |       ^
vertex.cpp:112:7: warning: unused variable 'i' [-Wunused-variable]
  112 |   int i;
      |       ^
1 warning generated.
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 -o rSpectral.so RcppExports.o SpectralModularity.o edge.o network.o rSpectral.o readfile.o vertex.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/rSpectral/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/rSpectral/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/rSpectral/src'
installing to /data/gannet/ripley/R/packages/tests-clang/rSpectral.Rcheck/00LOCK-rSpectral/00new/rSpectral/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** 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 (rSpectral)