* installing *source* package ‘collpcm’ ...
** package ‘collpcm’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘gcc-14 (GCC) 14.2.0’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/collpcm/src'
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include    -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c GaussianMixtureModel.c -o GaussianMixtureModel.o
GaussianMixtureModel.c: In function 'update_allocations_with_ejection_move':
GaussianMixtureModel.c:1338:36: warning: 'indexes' may be used uninitialized [-Wmaybe-uninitialized]
 1338 |                                 ii = indexes[i];
      |                                 ~~~^~~~~~~~~~~~
GaussianMixtureModel.c:1215:14: note: 'indexes' was declared here
 1215 |         int *indexes,*proposed_allocation,G = mixmod->G;
      |              ^~~~~~~
GaussianMixtureModel.c:1339:68: warning: 'proposed_allocation' may be used uninitialized [-Wmaybe-uninitialized]
 1339 |                                 mixmod->z[ii] = proposed_allocation[i];
      |                                                 ~~~~~~~~~~~~~~~~~~~^~~
GaussianMixtureModel.c:1215:23: note: 'proposed_allocation' was declared here
 1215 |         int *indexes,*proposed_allocation,G = mixmod->G;
      |                       ^~~~~~~~~~~~~~~~~~~
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include    -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c NetworkLib.c -o NetworkLib.o
NetworkLib.c: In function 'put_latentpositions':
NetworkLib.c:73:80: warning: 'X' may be used uninitialized [-Wmaybe-uninitialized]
   73 |                                         for( k=0; k<d; k++ ) a += ( X[i][k] - X[j][k] ) * ( X[i][k] - X[j][k] ) ;
      |                                                                               ~^~~
NetworkLib.c:43:18: note: 'X' was declared here
   43 |         double **X, *x, a;
      |                  ^
NetworkLib.c:43:22: warning: 'x' may be used uninitialized [-Wmaybe-uninitialized]
   43 |         double **X, *x, a;
      |                      ^
NetworkLib.c: In function 'dist_update':
NetworkLib.c:258:39: warning: 'x' may be used uninitialized [-Wmaybe-uninitialized]
  258 |                         dist[i][j] = x[i] - x[j] ;
      |                                       ^
NetworkLib.c:229:22: note: 'x' was declared here
  229 |         double **X, *x, **dist = nw->dist, a ;
      |                      ^
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include    -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c cat.c -o cat.o
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include    -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c collapsed_lpcm.c -o collapsed_lpcm.o
collapsed_lpcm.c:16:40: warning: missing braces around initializer [-Wmissing-braces]
   16 | static const R_CMethodDef cMethods[] = {
      |                                        ^
collapsed_lpcm.c: In function 'collapsed_lpcm':
collapsed_lpcm.c:32:16: warning: variable 'tinit' set but not used [-Wunused-but-set-variable]
   32 |         double tinit, lps;
      |                ^~~~~
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include    -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c nrutil.c -o nrutil.o
gcc-14 -shared -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes -fpic -L/usr/local/gcc14/lib64 -L/usr/local/lib64 -o collpcm.so GaussianMixtureModel.o NetworkLib.o cat.o collapsed_lpcm.o nrutil.o
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/collpcm/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/collpcm/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/collpcm/src'
installing to /data/gannet/ripley/R/packages/tests-devel/collpcm.Rcheck/00LOCK-collpcm/00new/collpcm/libs
** R
** data
** 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 (collpcm)