Install log for 'Morpho'

* installing *source* package ‘Morpho’ ...
** this is package ‘Morpho’ version ‘2.13’
** package ‘Morpho’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 21.1.0’
using C++ compiler: ‘clang version 21.1.0’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/Morpho/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 -DARMA_USE_CURRENT -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw   -c CVAdists.cpp -o CVAdists.o
In file included from CVAdists.cpp:1:
In file included from ./CVAdists.h:4:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/RcppArmadillo.h:32:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo:26:
/data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo_bits/config.hpp:373:11: warning: NOTE: option ARMA_CRIPPLED_LAPACK is not supported [-W#pragma-messages]
  373 |   #pragma message ("NOTE: option ARMA_CRIPPLED_LAPACK is not supported")
      |           ^
1 warning 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 -DARMA_USE_CURRENT -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw   -c CubeStuff.cpp -o CubeStuff.o
In file included from CubeStuff.cpp:1:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/RcppArmadillo.h:32:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo:26:
/data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo_bits/config.hpp:373:11: warning: NOTE: option ARMA_CRIPPLED_LAPACK is not supported [-W#pragma-messages]
  373 |   #pragma message ("NOTE: option ARMA_CRIPPLED_LAPACK is not supported")
      |           ^
1 warning 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 -DARMA_USE_CURRENT -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw   -c ang_calc.cpp -o ang_calc.o
In file included from ang_calc.cpp:1:
In file included from ./doozers.h:7:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/RcppArmadillo.h:32:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo:26:
/data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo_bits/config.hpp:373:11: warning: NOTE: option ARMA_CRIPPLED_LAPACK is not supported [-W#pragma-messages]
  373 |   #pragma message ("NOTE: option ARMA_CRIPPLED_LAPACK is not supported")
      |           ^
1 warning 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 -DARMA_USE_CURRENT -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw   -c armaGinvCpp.cpp -o armaGinvCpp.o
In file included from armaGinvCpp.cpp:1:
In file included from ./armaGinvCpp.h:4:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/RcppArmadillo.h:32:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo:26:
/data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo_bits/config.hpp:373:11: warning: NOTE: option ARMA_CRIPPLED_LAPACK is not supported [-W#pragma-messages]
  373 |   #pragma message ("NOTE: option ARMA_CRIPPLED_LAPACK is not supported")
      |           ^
1 warning 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 -DARMA_USE_CURRENT -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw   -c asymPerm.cpp -o asymPerm.o
In file included from asymPerm.cpp:1:
In file included from ./asymPerm.h:4:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/RcppArmadillo.h:32:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo:26:
/data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo_bits/config.hpp:373:11: warning: NOTE: option ARMA_CRIPPLED_LAPACK is not supported [-W#pragma-messages]
  373 |   #pragma message ("NOTE: option ARMA_CRIPPLED_LAPACK is not supported")
      |           ^
/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 -DARMA_USE_CURRENT -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw   -c barycenter.cpp -o barycenter.o
1 warning 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 -DARMA_USE_CURRENT -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw   -c covPCA.cpp -o covPCA.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 -DARMA_USE_CURRENT -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw   -c createL.cpp -o createL.o
In file included from covPCA.cpp:1:
In file included from ./covPCA.h:5:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/RcppArmadillo.h:32:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo:26:
/data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo_bits/config.hpp:373:11: warning: NOTE: option ARMA_CRIPPLED_LAPACK is not supported [-W#pragma-messages]
  373 |   #pragma message ("NOTE: option ARMA_CRIPPLED_LAPACK is not supported")
      |           ^
In file included from createL.cpp:1:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/RcppArmadillo.h:32:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo:26:
/data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo_bits/config.hpp:373:11: warning: NOTE: option ARMA_CRIPPLED_LAPACK is not supported [-W#pragma-messages]
  373 |   #pragma message ("NOTE: option ARMA_CRIPPLED_LAPACK is not supported")
      |           ^
1 warning generated.
1 warning 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 -DARMA_USE_CURRENT -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw   -c doozers.cpp -o doozers.o
In file included from doozers.cpp:4:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/RcppArmadillo.h:32:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo:26:
/data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo_bits/config.hpp:373:11: warning: NOTE: option ARMA_CRIPPLED_LAPACK is not supported [-W#pragma-messages]
  373 |   #pragma message ("NOTE: option ARMA_CRIPPLED_LAPACK is not supported")
      |           ^
/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 -DARMA_USE_CURRENT -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw   -c edgePlane.cpp -o edgePlane.o
In file included from edgePlane.cpp:1:
In file included from ./doozers.h:7:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/RcppArmadillo.h:32:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo:26:
/data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo_bits/config.hpp:373:11: warning: NOTE: option ARMA_CRIPPLED_LAPACK is not supported [-W#pragma-messages]
  373 |   #pragma message ("NOTE: option ARMA_CRIPPLED_LAPACK is not supported")
      |           ^
1 warning 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 -DARMA_USE_CURRENT -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw   -c face_zero.cpp -o face_zero.o
1 warning 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 -DARMA_USE_CURRENT -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw   -c fastSubsetMeans.cpp -o fastSubsetMeans.o
In file included from fastSubsetMeans.cpp:1:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/RcppArmadillo.h:32:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo:26:
/data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo_bits/config.hpp:373:11: warning: NOTE: option ARMA_CRIPPLED_LAPACK is not supported [-W#pragma-messages]
  373 |   #pragma message ("NOTE: option ARMA_CRIPPLED_LAPACK is not supported")
      |           ^
/usr/local/clang21/bin/clang -std=gnu23 -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 -Wp,-D_FORTIFY_SOURCE=3  -c init.c -o init.o
1 warning 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 -DARMA_USE_CURRENT -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw   -c inscribeEllipse.cpp -o inscribeEllipse.o
In file included from inscribeEllipse.cpp:1:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/RcppArmadillo.h:32:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo:26:
/data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo_bits/config.hpp:373:11: warning: NOTE: option ARMA_CRIPPLED_LAPACK is not supported [-W#pragma-messages]
  373 |   #pragma message ("NOTE: option ARMA_CRIPPLED_LAPACK is not supported")
      |           ^
/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 -DARMA_USE_CURRENT -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw   -c meshres.cpp -o meshres.o
In file included from meshres.cpp:1:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/RcppArmadillo.h:32:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo:26:
/data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo_bits/config.hpp:373:11: warning: NOTE: option ARMA_CRIPPLED_LAPACK is not supported [-W#pragma-messages]
  373 |   #pragma message ("NOTE: option ARMA_CRIPPLED_LAPACK is not supported")
      |           ^
inscribeEllipse.cpp:98:13: warning: unused variable 's3' [-Wunused-variable]
   98 |       float s3 = step;
      |             ^~
inscribeEllipse.cpp:82:11: warning: unused variable 'minrr' [-Wunused-variable]
   82 |     float minrr = 6;
      |           ^~~~~
inscribeEllipse.cpp:87:11: warning: unused variable 'bestx' [-Wunused-variable]
   87 |     float bestx = init_point[0];
      |           ^~~~~
inscribeEllipse.cpp:89:11: warning: unused variable 'besty' [-Wunused-variable]
   89 |     float besty = init_point[1];
      |           ^~~~~
inscribeEllipse.cpp:92:11: warning: variable 'bestiter' set but not used [-Wunused-but-set-variable]
   92 |     float bestiter = 0;
      |           ^
1 warning generated.
6 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 -DARMA_USE_CURRENT -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw   -c permudistArma.cpp -o permudistArma.o
In file included from permudistArma.cpp:1:
In file included from ./permudistArma.h:4:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/RcppArmadillo.h:32:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo:26:
/data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo_bits/config.hpp:373:11: warning: NOTE: option ARMA_CRIPPLED_LAPACK is not supported [-W#pragma-messages]
  373 |   #pragma message ("NOTE: option ARMA_CRIPPLED_LAPACK is not supported")
      |           ^
permudistArma.cpp:9:10: warning: unused variable 'usemedian' [-Wunused-variable]
    9 |     bool usemedian = Rcpp::as<bool>(usemedian_);
      |          ^~~~~~~~~
/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 -DARMA_USE_CURRENT -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw   -c points2mesh.cpp -o points2mesh.o
2 warnings generated.
In file included from points2mesh.cpp:1:
In file included from ./points2mesh.h:4:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/RcppArmadillo.h:32:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo:26:
/data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo_bits/config.hpp:373:11: warning: NOTE: option ARMA_CRIPPLED_LAPACK is not supported [-W#pragma-messages]
  373 |   #pragma message ("NOTE: option ARMA_CRIPPLED_LAPACK is not supported")
      |           ^
1 warning 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 -DARMA_USE_CURRENT -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw   -c tpsfx.cpp -o tpsfx.o
In file included from tpsfx.cpp:1:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/RcppArmadillo.h:32:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo:26:
/data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo_bits/config.hpp:373:11: warning: NOTE: option ARMA_CRIPPLED_LAPACK is not supported [-W#pragma-messages]
  373 |   #pragma message ("NOTE: option ARMA_CRIPPLED_LAPACK is not supported")
      |           ^
/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 -DARMA_USE_CURRENT -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw   -c tweakU.cpp -o tweakU.o
1 warning 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 -DARMA_USE_CURRENT -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw   -c updateNormals.cpp -o updateNormals.o
In file included from updateNormals.cpp:1:
In file included from ./updateNormals.h:4:
In file included from ./doozers.h:7:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/RcppArmadillo.h:32:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo:26:
/data/gannet/ripley/R/test-clang/RcppArmadillo/include/current/armadillo_bits/config.hpp:373:11: warning: NOTE: option ARMA_CRIPPLED_LAPACK is not supported [-W#pragma-messages]
  373 |   #pragma message ("NOTE: option ARMA_CRIPPLED_LAPACK is not supported")
      |           ^
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 Morpho.so CVAdists.o CubeStuff.o ang_calc.o armaGinvCpp.o asymPerm.o barycenter.o covPCA.o createL.o doozers.o edgePlane.o face_zero.o fastSubsetMeans.o init.o inscribeEllipse.o meshres.o permudistArma.o points2mesh.o tpsfx.o tweakU.o updateNormals.o -L/data/gannet/ripley/R/R-clang/lib -lRlapack -L/data/gannet/ripley/R/R-clang/lib -lRblas -lflang_rt.runtime -lm -fopenmp
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/Morpho/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/Morpho/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/Morpho/src'
installing to /data/gannet/ripley/R/packages/tests-clang/Morpho.Rcheck/00LOCK-Morpho/00new/Morpho/libs
** R
** data
** inst
** 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 (Morpho)