* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘collpcm’ ...
** package ‘collpcm’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘gcc-13 (Debian 13.2.0-24) 13.2.0’
make[1]: Entering directory '/tmp/RtmpORyJgD/R.INSTALL1d92dc28c38641/collpcm/src'
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -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-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -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-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c cat.c -o cat.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -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-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c nrutil.c -o nrutil.o
gcc-13 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o collpcm.so GaussianMixtureModel.o NetworkLib.o cat.o collapsed_lpcm.o nrutil.o -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/tmp/RtmpORyJgD/R.INSTALL1d92dc28c38641/collpcm/src'
make[1]: Entering directory '/tmp/RtmpORyJgD/R.INSTALL1d92dc28c38641/collpcm/src'
make[1]: Leaving directory '/tmp/RtmpORyJgD/R.INSTALL1d92dc28c38641/collpcm/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-collpcm/00new/collpcm/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package ‘collpcm’
    finding HTML links ... done
    Dolphins                                html  
    Karate                                  html  
    Monks                                   html  
    collpcm.control                         html  
    collpcm.fit                             html  
    collpcm.summaryplot                     html  
    collpcm.undo.label.switching            html  
    plot.collpcm                            html  
    print.collpcm                           html  
    summary.collpcm                         html  
** 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
* creating tarball
packaged installation of ‘collpcm’ as ‘collpcm_1.4_R_x86_64-pc-linux-gnu.tar.gz’
* DONE (collpcm)