Install log for 'redistmetrics'

* installing *source* package ‘redistmetrics’ ...
** package ‘redistmetrics’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-14 (GCC) 14.2.0’
using C++17
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/redistmetrics/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'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-dev/RcppThread/include' -I/usr/local/include -DC99_INLINE_SEMANTICS=0  -fopenmp -DARMA_64BIT_WORD=1 -g0 -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  -DR_NO_REMAP -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'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-dev/RcppThread/include' -I/usr/local/include -DC99_INLINE_SEMANTICS=0  -fopenmp -DARMA_64BIT_WORD=1 -g0 -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  -DR_NO_REMAP -c compactness.cpp -o compactness.o
In file included from /data/gannet/ripley/R/test-dev/RcppThread/include/RcppThread.h:9,
                 from ../inst/include/redistmetrics_RcppExports.h:9,
                 from ../inst/include/redistmetrics.h:7,
                 from RcppExports.cpp:4:
/data/gannet/ripley/R/test-dev/RcppThread/include/RcppThread/RMonitor.hpp:10:9: warning: "R_NO_REMAP" redefined
   10 | #define R_NO_REMAP
      |         ^~~~~~~~~~
<command-line>: note: this is the location of the previous definition
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-dev/RcppThread/include' -I/usr/local/include -DC99_INLINE_SEMANTICS=0  -fopenmp -DARMA_64BIT_WORD=1 -g0 -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  -DR_NO_REMAP -c competitiveness.cpp -o competitiveness.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'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-dev/RcppThread/include' -I/usr/local/include -DC99_INLINE_SEMANTICS=0  -fopenmp -DARMA_64BIT_WORD=1 -g0 -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  -DR_NO_REMAP -c contiguity.cpp -o contiguity.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'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-dev/RcppThread/include' -I/usr/local/include -DC99_INLINE_SEMANTICS=0  -fopenmp -DARMA_64BIT_WORD=1 -g0 -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  -DR_NO_REMAP -c distances.cpp -o distances.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'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-dev/RcppThread/include' -I/usr/local/include -DC99_INLINE_SEMANTICS=0  -fopenmp -DARMA_64BIT_WORD=1 -g0 -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  -DR_NO_REMAP -c kirchhoff.cpp -o kirchhoff.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'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-dev/RcppThread/include' -I/usr/local/include -DC99_INLINE_SEMANTICS=0  -fopenmp -DARMA_64BIT_WORD=1 -g0 -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  -DR_NO_REMAP -c partisan.cpp -o partisan.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'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-dev/RcppThread/include' -I/usr/local/include -DC99_INLINE_SEMANTICS=0  -fopenmp -DARMA_64BIT_WORD=1 -g0 -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  -DR_NO_REMAP -c reindex.cpp -o reindex.o
In file included from kirchhoff.cpp:2:
../inst/include/kirchhoff_inline.h: In function 'double log_st_distr(const Graph&, const arma::umat&, const arma::uvec&, int, int, int)':
../inst/include/kirchhoff_inline.h:25:27: warning: comparison of integer expressions of different signedness: 'const long long unsigned int' and 'int' [-Wsign-compare]
   25 |     if (districts(i, idx) == district && counties(i) == county) {
      |         ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~
../inst/include/kirchhoff_inline.h:25:54: warning: comparison of integer expressions of different signedness: 'const long long unsigned int' and 'int' [-Wsign-compare]
   25 |     if (districts(i, idx) == district && counties(i) == county) {
      |                                          ~~~~~~~~~~~~^~~~~~~~~
../inst/include/kirchhoff_inline.h:34:27: warning: comparison of integer expressions of different signedness: 'const long long unsigned int' and 'int' [-Wsign-compare]
   34 |     if (districts(i, idx) != district || counties(i) != county) continue;
      |         ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~
../inst/include/kirchhoff_inline.h:34:54: warning: comparison of integer expressions of different signedness: 'const long long unsigned int' and 'int' [-Wsign-compare]
   34 |     if (districts(i, idx) != district || counties(i) != county) continue;
      |                                          ~~~~~~~~~~~~^~~~~~~~~
../inst/include/kirchhoff_inline.h:43:32: warning: comparison of integer expressions of different signedness: 'const long long unsigned int' and 'int' [-Wsign-compare]
   43 |       if (districts(nbor, idx) != district || counties(nbor) != county) continue;
      |           ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~
../inst/include/kirchhoff_inline.h:43:62: warning: comparison of integer expressions of different signedness: 'const long long unsigned int' and 'int' [-Wsign-compare]
   43 |       if (districts(nbor, idx) != district || counties(nbor) != county) continue;
      |                                               ~~~~~~~~~~~~~~~^~~~~~~~~
../inst/include/kirchhoff_inline.h: In function 'double log_st_contr(const Graph&, const arma::umat&, const arma::uvec&, int, int, int)':
../inst/include/kirchhoff_inline.h:70:27: warning: comparison of integer expressions of different signedness: 'const long long unsigned int' and 'int' [-Wsign-compare]
   70 |     if (districts(i, idx) != district) continue;
      |         ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~
../inst/include/kirchhoff_inline.h:85:27: warning: comparison of integer expressions of different signedness: 'const long long unsigned int' and 'int' [-Wsign-compare]
   85 |     if (districts(i, idx) != district) continue;
      |         ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~
../inst/include/kirchhoff_inline.h:93:32: warning: comparison of integer expressions of different signedness: 'const long long unsigned int' and 'int' [-Wsign-compare]
   93 |       if (districts(nbor, idx) != district || pos.at(nbor) == cty) continue;
      |           ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~
kirchhoff.cpp: In function 'Rcpp::NumericVector n_removed(const Graph&, const arma::umat&, int)':
kirchhoff.cpp:43:36: warning: comparison of integer expressions of different signedness: 'const long long unsigned int' and 'int' [-Wsign-compare]
   43 |         if (districts(nbors[j], n) != dist) removed += 1.0;
      |             ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-dev/RcppThread/include' -I/usr/local/include -DC99_INLINE_SEMANTICS=0  -fopenmp -DARMA_64BIT_WORD=1 -g0 -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  -DR_NO_REMAP -c segregation.cpp -o segregation.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'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-dev/RcppThread/include' -I/usr/local/include -DC99_INLINE_SEMANTICS=0  -fopenmp -DARMA_64BIT_WORD=1 -g0 -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  -DR_NO_REMAP -c splits.cpp -o splits.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'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-dev/RcppThread/include' -I/usr/local/include -DC99_INLINE_SEMANTICS=0  -fopenmp -DARMA_64BIT_WORD=1 -g0 -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  -DR_NO_REMAP -c tally.cpp -o tally.o
segregation.cpp: In function 'Rcpp::NumericVector segregationcalc(Rcpp::NumericMatrix, Rcpp::NumericVector, Rcpp::NumericVector)':
segregation.cpp:54:24: warning: comparison of integer expressions of different signedness: 'int' and 'arma::uword' {aka 'long long unsigned int'} [-Wsign-compare]
   54 |       for(int k = 0; k < findCds.size(); k++){
      |                      ~~^~~~~~~~~~~~~~~~
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-dev/RcppThread/include' -I/usr/local/include -DC99_INLINE_SEMANTICS=0  -fopenmp -DARMA_64BIT_WORD=1 -g0 -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  -DR_NO_REMAP -c varinfo.cpp -o varinfo.o
In file included from /data/gannet/ripley/R/test-dev/RcppThread/include/RcppThread.h:9,
                 from varinfo.cpp:3:
/data/gannet/ripley/R/test-dev/RcppThread/include/RcppThread/RMonitor.hpp:10:9: warning: "R_NO_REMAP" redefined
   10 | #define R_NO_REMAP
      |         ^~~~~~~~~~
<command-line>: note: this is the location of the previous definition
g++-14 -std=gnu++17 -shared -L/usr/local/gcc14/lib64 -L/usr/local/lib64 -o redistmetrics.so RcppExports.o compactness.o competitiveness.o contiguity.o distances.o kirchhoff.o partisan.o reindex.o segregation.o splits.o tally.o varinfo.o -latomic -lpthread -latomic -lpthread -llapack -L/data/gannet/ripley/R/R-devel/lib -lRblas -lgfortran -lm -lquadmath -fopenmp
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/redistmetrics/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/redistmetrics/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/redistmetrics/src'
installing to /data/gannet/ripley/R/packages/tests-devel/redistmetrics.Rcheck/00LOCK-redistmetrics/00new/redistmetrics/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** 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 (redistmetrics)