* installing *source* package ‘parallelpam’ ...
** package ‘parallelpam’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-14 (GCC) 14.1.0’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/parallelpam/src'
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -I../inst/include -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c RcppExports.cpp -o RcppExports.o
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -I../inst/include -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c csvtojmat.cpp -o csvtojmat.o
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -I../inst/include -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c debugpar.cpp -o debugpar.o
In file included from csvtojmat.cpp:29:
../inst/include/sparsematrix.h:64:26: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
   64 |     SparseMatrix<T>(std::string fname);
      |                          ^~~~~~
../inst/include/sparsematrix.h:64:26: note: remove the '< >'
../inst/include/sparsematrix.h:76:26: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
   76 |     SparseMatrix<T>(std::string fname,TrMark);
      |                          ^~~~~~
../inst/include/sparsematrix.h:76:26: note: remove the '< >'
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -I../inst/include -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c diftimehelper.cpp -o diftimehelper.o
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -I../inst/include -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c dissimmat.cpp -o dissimmat.o
In file included from ../inst/include/dissimmat.h:25,
                 from dissimmat.cpp:19:
../inst/include/sparsematrix.h:64:26: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
   64 |     SparseMatrix<T>(std::string fname);
      |                          ^~~~~~
../inst/include/sparsematrix.h:64:26: note: remove the '< >'
../inst/include/sparsematrix.h:76:26: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
   76 |     SparseMatrix<T>(std::string fname,TrMark);
      |                          ^~~~~~
../inst/include/sparsematrix.h:76:26: note: remove the '< >'
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -I../inst/include -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c dissimmat_full.cpp -o dissimmat_full.o
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -I../inst/include -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c dissimmat_sparse.cpp -o dissimmat_sparse.o
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -I../inst/include -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c fastpam.cpp -o fastpam.o
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -I../inst/include -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c filternames.cpp -o filternames.o
In file included from ../inst/include/dissimmat.h:25,
                 from dissimmat_full.cpp:19:
../inst/include/sparsematrix.h:64:26: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
   64 |     SparseMatrix<T>(std::string fname);
      |                          ^~~~~~
../inst/include/sparsematrix.h:64:26: note: remove the '< >'
../inst/include/sparsematrix.h:76:26: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
   76 |     SparseMatrix<T>(std::string fname,TrMark);
      |                          ^~~~~~
../inst/include/sparsematrix.h:76:26: note: remove the '< >'
In file included from ../inst/include/dissimmat.h:25,
                 from dissimmat_sparse.cpp:19:
../inst/include/sparsematrix.h:64:26: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
   64 |     SparseMatrix<T>(std::string fname);
      |                          ^~~~~~
../inst/include/sparsematrix.h:64:26: note: remove the '< >'
../inst/include/sparsematrix.h:76:26: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
   76 |     SparseMatrix<T>(std::string fname,TrMark);
      |                          ^~~~~~
../inst/include/sparsematrix.h:76:26: note: remove the '< >'
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -I../inst/include -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c filtersil.cpp -o filtersil.o
In file included from filternames.cpp:28:
../inst/include/sparsematrix.h:64:26: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
   64 |     SparseMatrix<T>(std::string fname);
      |                          ^~~~~~
../inst/include/sparsematrix.h:64:26: note: remove the '< >'
../inst/include/sparsematrix.h:76:26: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
   76 |     SparseMatrix<T>(std::string fname,TrMark);
      |                          ^~~~~~
../inst/include/sparsematrix.h:76:26: note: remove the '< >'
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -I../inst/include -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c fullmatrix.cpp -o fullmatrix.o
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -I../inst/include -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c jmatrix.cpp -o jmatrix.o
In file included from ../inst/include/silhouette.h:23,
                 from filtersil.cpp:19:
../inst/include/sparsematrix.h:64:26: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
   64 |     SparseMatrix<T>(std::string fname);
      |                          ^~~~~~
../inst/include/sparsematrix.h:64:26: note: remove the '< >'
../inst/include/sparsematrix.h:76:26: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
   76 |     SparseMatrix<T>(std::string fname,TrMark);
      |                          ^~~~~~
../inst/include/sparsematrix.h:76:26: note: remove the '< >'
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -I../inst/include -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c jmatrixaux.cpp -o jmatrixaux.o
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -I../inst/include -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c mainfastpam.cpp -o mainfastpam.o
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -I../inst/include -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c matgetcols.cpp -o matgetcols.o
In file included from matgetcols.cpp:23:
../inst/include/sparsematrix.h:64:26: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
   64 |     SparseMatrix<T>(std::string fname);
      |                          ^~~~~~
../inst/include/sparsematrix.h:64:26: note: remove the '< >'
../inst/include/sparsematrix.h:76:26: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
   76 |     SparseMatrix<T>(std::string fname,TrMark);
      |                          ^~~~~~
../inst/include/sparsematrix.h:76:26: note: remove the '< >'
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -I../inst/include -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c matgetdiag.cpp -o matgetdiag.o
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -I../inst/include -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c matgetrows.cpp -o matgetrows.o
In file included from matgetdiag.cpp:23:
../inst/include/sparsematrix.h:64:26: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
   64 |     SparseMatrix<T>(std::string fname);
      |                          ^~~~~~
../inst/include/sparsematrix.h:64:26: note: remove the '< >'
../inst/include/sparsematrix.h:76:26: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
   76 |     SparseMatrix<T>(std::string fname,TrMark);
      |                          ^~~~~~
../inst/include/sparsematrix.h:76:26: note: remove the '< >'
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -I../inst/include -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c matinfo.cpp -o matinfo.o
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -I../inst/include -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c matmetadata.cpp -o matmetadata.o
In file included from matgetrows.cpp:23:
../inst/include/sparsematrix.h:64:26: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
   64 |     SparseMatrix<T>(std::string fname);
      |                          ^~~~~~
../inst/include/sparsematrix.h:64:26: note: remove the '< >'
../inst/include/sparsematrix.h:76:26: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
   76 |     SparseMatrix<T>(std::string fname,TrMark);
      |                          ^~~~~~
../inst/include/sparsematrix.h:76:26: note: remove the '< >'
In file included from matinfo.cpp:23:
../inst/include/sparsematrix.h:64:26: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
   64 |     SparseMatrix<T>(std::string fname);
      |                          ^~~~~~
../inst/include/sparsematrix.h:64:26: note: remove the '< >'
../inst/include/sparsematrix.h:76:26: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
   76 |     SparseMatrix<T>(std::string fname,TrMark);
      |                          ^~~~~~
../inst/include/sparsematrix.h:76:26: note: remove the '< >'
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -I../inst/include -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c matwrite.cpp -o matwrite.o
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -I../inst/include -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c memhelper.cpp -o memhelper.o
In file included from ../inst/include/matmetadata.h:23,
                 from matmetadata.cpp:1:
../inst/include/sparsematrix.h:64:26: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
   64 |     SparseMatrix<T>(std::string fname);
      |                          ^~~~~~
../inst/include/sparsematrix.h:64:26: note: remove the '< >'
../inst/include/sparsematrix.h:76:26: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
   76 |     SparseMatrix<T>(std::string fname,TrMark);
      |                          ^~~~~~
../inst/include/sparsematrix.h:76:26: note: remove the '< >'
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -I../inst/include -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c silhouette.cpp -o silhouette.o
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -I../inst/include -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c sparsematrix.cpp -o sparsematrix.o
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -I../inst/include -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c symmetricmatrix.cpp -o symmetricmatrix.o
In file included from matwrite.cpp:23:
../inst/include/sparsematrix.h:64:26: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
   64 |     SparseMatrix<T>(std::string fname);
      |                          ^~~~~~
../inst/include/sparsematrix.h:64:26: note: remove the '< >'
../inst/include/sparsematrix.h:76:26: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
   76 |     SparseMatrix<T>(std::string fname,TrMark);
      |                          ^~~~~~
../inst/include/sparsematrix.h:76:26: note: remove the '< >'
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -I../inst/include -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c threadhelper.cpp -o threadhelper.o
In file included from ../inst/include/silhouette.h:23,
                 from silhouette.cpp:19:
../inst/include/sparsematrix.h:64:26: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
   64 |     SparseMatrix<T>(std::string fname);
      |                          ^~~~~~
../inst/include/sparsematrix.h:64:26: note: remove the '< >'
../inst/include/sparsematrix.h:76:26: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
   76 |     SparseMatrix<T>(std::string fname,TrMark);
      |                          ^~~~~~
../inst/include/sparsematrix.h:76:26: note: remove the '< >'
In file included from sparsematrix.cpp:20:
../inst/include/sparsematrix.h:64:26: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
   64 |     SparseMatrix<T>(std::string fname);
      |                          ^~~~~~
../inst/include/sparsematrix.h:64:26: note: remove the '< >'
../inst/include/sparsematrix.h:76:26: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
   76 |     SparseMatrix<T>(std::string fname,TrMark);
      |                          ^~~~~~
../inst/include/sparsematrix.h:76:26: note: remove the '< >'
g++-14 -std=gnu++17 -shared -L/usr/local/gcc14/lib64 -L/usr/local/lib64 -o parallelpam.so RcppExports.o csvtojmat.o debugpar.o diftimehelper.o dissimmat.o dissimmat_full.o dissimmat_sparse.o fastpam.o filternames.o filtersil.o fullmatrix.o jmatrix.o jmatrixaux.o mainfastpam.o matgetcols.o matgetdiag.o matgetrows.o matinfo.o matmetadata.o matwrite.o memhelper.o silhouette.o sparsematrix.o symmetricmatrix.o threadhelper.o -lpthread -O2
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/parallelpam/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/parallelpam/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/parallelpam/src'
installing to /data/gannet/ripley/R/packages/tests-devel/parallelpam.Rcheck/00LOCK-parallelpam/00new/parallelpam/libs
** R
** 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 (parallelpam)