Install log for 'robCompositions'

* installing *source* package ‘robCompositions’ ...
** package ‘robCompositions’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 18.1.2’
using C++ compiler: ‘clang version 18.1.2’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/robCompositions/src'
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/data/gannet/ripley/R/R-clang/library/Rcpp/include -I/data/gannet/ripley/R/R-clang/library/RcppEigen/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3   -c bspline.cpp -o bspline.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/data/gannet/ripley/R/R-clang/library/Rcpp/include -I/data/gannet/ripley/R/R-clang/library/RcppEigen/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3   -c classData.cpp -o classData.o
In file included from classData.cpp:10:
In file included from ./density_estimation.h:5:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:26:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/SparseCore:61:
/data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  273 |       Index count = 0;
      |             ^
In file included from classData.cpp:10:
In file included from ./density_estimation.h:5:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:29:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/SparseLU:35:
/data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
   78 |   Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree 
      |         ^
/data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
   79 |   Index nsuper_et = 0; // Number of relaxed snodes in the original etree 
      |         ^
3 warnings generated.
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/data/gannet/ripley/R/R-clang/library/Rcpp/include -I/data/gannet/ripley/R/R-clang/library/RcppEigen/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3   -c cuore.cpp -o cuore.o
In file included from cuore.cpp:1:
In file included from ./density_estimation.h:5:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:26:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/SparseCore:61:
/data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  273 |       Index count = 0;
      |             ^
In file included from cuore.cpp:1:
In file included from ./density_estimation.h:5:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:29:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/SparseLU:35:
/data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
   78 |   Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree 
      |         ^
/data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
   79 |   Index nsuper_et = 0; // Number of relaxed snodes in the original etree 
      |         ^
In file included from cuore.cpp:10:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:31:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
   72 |                         Index replacements = 0;
      |                               ^
In file included from cuore.cpp:10:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:37:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  246 |   int count = 0;
      |       ^
cuore.cpp:235:7: warning: unused variable 'barWidth' [-Wunused-variable]
  235 |   int barWidth = 70; // for bar progress plot
      |       ^~~~~~~~
cuore.cpp:236:7: warning: unused variable 'count' [-Wunused-variable]
  236 |   int count = 0;
      |       ^~~~~
cuore.cpp:237:7: warning: unused variable 'pos' [-Wunused-variable]
  237 |   int pos = 0;
      |       ^~~
8 warnings generated.
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/data/gannet/ripley/R/R-clang/library/Rcpp/include -I/data/gannet/ripley/R/R-clang/library/RcppEigen/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3   -c density_estimation.cpp -o density_estimation.o
In file included from density_estimation.cpp:2:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:26:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/SparseCore:61:
/data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  273 |       Index count = 0;
      |             ^
In file included from density_estimation.cpp:2:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:29:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/SparseLU:35:
/data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
   78 |   Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree 
      |         ^
/data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
   79 |   Index nsuper_et = 0; // Number of relaxed snodes in the original etree 
      |         ^
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/data/gannet/ripley/R/R-clang/library/Rcpp/include -I/data/gannet/ripley/R/R-clang/library/RcppEigen/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3   -c gauss_points_weights.cpp -o gauss_points_weights.o
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/data/gannet/ripley/R/R-clang/library/Rcpp/include -I/data/gannet/ripley/R/R-clang/library/RcppEigen/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c robCompositions.c -o robCompositions.o
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/data/gannet/ripley/R/R-clang/library/Rcpp/include -I/data/gannet/ripley/R/R-clang/library/RcppEigen/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c robCompositions_init.c -o robCompositions_init.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/data/gannet/ripley/R/R-clang/library/Rcpp/include -I/data/gannet/ripley/R/R-clang/library/RcppEigen/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3   -c sandia_rules.cpp -o sandia_rules.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/data/gannet/ripley/R/R-clang/library/Rcpp/include -I/data/gannet/ripley/R/R-clang/library/RcppEigen/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3   -c zeros.cpp -o zeros.o
zeros.cpp:110:10: warning: variable 't_tot' set but not used [-Wunused-but-set-variable]
  110 |   double t_tot = 0.0;
      |          ^
1 warning generated.
sandia_rules.cpp:6030:17: warning: unused variable 'sqrtpi' [-Wunused-variable]
 6030 |   static double sqrtpi = 1.7724538509055159;
      |                 ^~~~~~
sandia_rules.cpp:7009:7: warning: unused variable 'j' [-Wunused-variable]
 7009 |   int j;
      |       ^
sandia_rules.cpp:11501:10: warning: variable 'cc' set but not used [-Wunused-but-set-variable]
 11501 |   double cc;
       |          ^
sandia_rules.cpp:13834:10: warning: variable 'fx' set but not used [-Wunused-but-set-variable]
 13834 |   double fx;
       |          ^
sandia_rules.cpp:16460:7: warning: unused variable 'i' [-Wunused-variable]
 16460 |   int i;
       |       ^
sandia_rules.cpp:16556:7: warning: unused variable 'i' [-Wunused-variable]
 16556 |   int i;
       |       ^
sandia_rules.cpp:19283:7: warning: unused variable 'j' [-Wunused-variable]
 19283 |   int j;
       |       ^
sandia_rules.cpp:19444:7: warning: unused variable 'j' [-Wunused-variable]
 19444 |   int j;
       |       ^
sandia_rules.cpp:19449:7: warning: unused variable 'k1' [-Wunused-variable]
 19449 |   int k1;
       |       ^~
sandia_rules.cpp:19812:7: warning: unused variable 'j' [-Wunused-variable]
 19812 |   int j;
       |       ^
sandia_rules.cpp:19998:7: warning: unused variable 'j' [-Wunused-variable]
 19998 |   int j;
       |       ^
sandia_rules.cpp:20003:7: warning: unused variable 'k1' [-Wunused-variable]
 20003 |   int k1;
       |       ^~
sandia_rules.cpp:21619:17: warning: variable 'k' is used uninitialized whenever 'if' condition is false [-Wsometimes-uninitialized]
 21619 |       else if ( m < 0 )
       |                 ^~~~~
sandia_rules.cpp:21747:14: note: uninitialized use occurs here
 21747 |   if ( 120 < k )
       |              ^
sandia_rules.cpp:21619:12: note: remove the 'if' if its condition is always true
 21619 |       else if ( m < 0 )
       |            ^~~~~~~~~~~~
 21620 |       {
sandia_rules.cpp:21385:8: note: initialize the variable 'k' to silence this warning
 21385 |   int k;
       |        ^
       |         = 0
sandia_rules.cpp:25625:10: warning: variable 'len' set but not used [-Wunused-but-set-variable]
 25625 |   size_t len;
       |          ^
14 warnings generated.
3 warnings generated.
/usr/local/clang18/bin/clang++ -std=gnu++17 -shared -L/usr/local/clang/lib64 -L/usr/local/clang18/lib -L/usr/local/clang18/lib/x86_64-unknown-linux-gnu -L/usr/local/gcc13/lib64 -L/usr/local/lib64 -o robCompositions.so bspline.o classData.o cuore.o density_estimation.o gauss_points_weights.o robCompositions.o robCompositions_init.o sandia_rules.o zeros.o
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/robCompositions/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/robCompositions/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/robCompositions/src'
installing to /data/gannet/ripley/R/packages/tests-clang/robCompositions.Rcheck/00LOCK-robCompositions/00new/robCompositions/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 (robCompositions)