* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘bioimagetools’ ...
** this is package ‘bioimagetools’ version ‘1.1.9’
** package ‘bioimagetools’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘gcc-14 (Debian 14.3.0-10) 14.3.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpMjpqYw/R.INSTALL15a627a329ddf/bioimagetools/src'
gcc-14 -std=gnu23 -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 filter.c -o filter.o
gcc-14 -std=gnu23 -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 getid.c -o getid.o
gcc-14 -std=gnu23 -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 init.c -o init.o
init.c:5:27: warning: missing braces around initializer [-Wmissing-braces]
    5 | R_CMethodDef cMethods[] = {
      |                           ^
gcc-14 -std=gnu23 -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 nearestClassDistances.c -o nearestClassDistances.o
gcc-14 -std=gnu23 -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 segment.c -o segment.o
gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o bioimagetools.so filter.o getid.o init.o nearestClassDistances.o segment.o -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpMjpqYw/R.INSTALL15a627a329ddf/bioimagetools/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpMjpqYw/R.INSTALL15a627a329ddf/bioimagetools/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpMjpqYw/R.INSTALL15a627a329ddf/bioimagetools/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-bioimagetools/00new/bioimagetools/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package ‘bioimagetools’
    finding HTML links ... done
    K.cross.3D                              html  
    L.cross.3D                              html  
    bwlabel3d                               html  
    cmoments3d                              html  
    cnnTest                                 html  
    crossNN                                 html  
    distance2border                         html  
    filterImage3d                           html  
    folder.choose                           html  
    img                                     html  
    intensity3D                             html  
    mexican.hat.brush                       html  
    nearest.neighbour.distribution          html  
    nearestClassDistance                    html  
    nearestClassDistances                   html  
    outside                                 html  
    plotNearestClassDistances               html  
    readBMP                                 html  
    readClassTIF                            html  
    readTIF                                 html  
    segment                                 html  
    segment.outside                         html  
    spots                                   html  
    standardize                             html  
    table.n                                 html  
    testColoc                               html  
    writeTIF                                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
* DONE (bioimagetools)