* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘espadon’ ...
** package ‘espadon’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-13 (Debian 13.2.0-23) 13.2.0’
make[1]: Entering directory '/tmp/RtmpR19rlV/R.INSTALL12f2b681cbc7a/espadon/src'
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c addcommonptC.cpp -o addcommonptC.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c dicombrowser.cpp -o dicombrowser.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c fansphereC.cpp -o fansphereC.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c fantovoxelC.cpp -o fantovoxelC.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gammaindex.cpp -o gammaindex.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c getijktfromindexC.cpp -o getijktfromindexC.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c getvaluefromijkC.cpp -o getvaluefromijkC.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c isoclineC.cpp -o isoclineC.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c labelbrowser.cpp -o labelbrowser.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c mdcC.cpp -o mdcC.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c mean_voxC.cpp -o mean_voxC.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c medianfilterC.cpp -o medianfilterC.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c meshinfront.cpp -o meshinfront.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c ptinpolygonC.cpp -o ptinpolygonC.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c ptnearestC.cpp -o ptnearestC.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c roiinterC.cpp -o roiinterC.o
g++-13 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o espadon.so RcppExports.o addcommonptC.o dicombrowser.o fansphereC.o fantovoxelC.o gammaindex.o getijktfromindexC.o getvaluefromijkC.o isoclineC.o labelbrowser.o mdcC.o mean_voxC.o medianfilterC.o meshinfront.o ptinpolygonC.o ptnearestC.o roiinterC.o -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/tmp/RtmpR19rlV/R.INSTALL12f2b681cbc7a/espadon/src'
make[1]: Entering directory '/tmp/RtmpR19rlV/R.INSTALL12f2b681cbc7a/espadon/src'
make[1]: Leaving directory '/tmp/RtmpR19rlV/R.INSTALL12f2b681cbc7a/espadon/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-espadon/00new/espadon/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package ‘espadon’
finding HTML links ... done
Rdcm.inventory html
Rdcm.upgrade html
add.margin html
bin.closing html
bin.clustering html
bin.dilation html
bin.erosion html
bin.from.roi html
bin.from.vol html
bin.intersection html
bin.inversion html
bin.opening html
bin.subtraction html
bin.sum html
castlow.str html
castup.str html
dicom.browser html
dicom.parser html
dicom.patient.anonymiser html
dicom.raw.data.anonymizer html
dicom.raw.data.loader html
dicom.set.tag.value html
dicom.tag.dictionary html
dicom.tag.parser html
dicom.to.Rdcm.converter html
dicom.viewer html
display.2D.histo html
display.3D.contour html
display.3D.mesh html
display.3D.sections html
display.3D.stack html
display.DVH html
display.DVH.pc html
display.dV_dx html
display.histo html
display.kplane html
display.legend html
display.obj.links html
display.palette html
display.plane html
espadon-package html
espadon.class html
export html
fan.beam html
fan.planar html
fan.sphere html
fan.to.voxel html
get.extreme.pt html
get.ijk.from.index html
get.ijk.from.xyz html
get.line html
get.obj.connection html
get.plane html
get.rigid.M html
get.roi.connection html
get.value.from.ijk html
get.value.from.mesh html
get.value.from.xyz html
get.volume.from.bin html
get.volume.from.roi html
get.xyz.from.index html
grid.equal html
histo.2D html
histo.DVH html
histo.from.bin html
histo.from.roi html
histo.vol html
load.Rdcm.raw.data html
load.T.MAT html
load.obj.data html
load.obj.from.Rdcm html
load.obj.from.dicom html
load.patient.from.Rdcm html
load.patient.from.dicom html
mesh.from.bin html
mesh.in.new.ref html
mesh.repair html
mesh.spheric.proj html
nesting.bin html
nesting.cube html
nesting.roi html
obj.create html
orientation.create html
pal.RVV html
pal.rainbow html
plot html
ref.add html
ref.cutplane.add html
ref.remove html
ref.srctodest.add html
rt.chi.index html
rt.gamma.index html
rt.indices.from.bin html
rt.indices.from.roi html
save.T.MAT html
save.to.Rdcm html
select.names html
set.reference.obj html
sp.similarity.from.bin html
sp.similarity.from.mesh html
struct.clustering html
struct.from.bin html
struct.from.mesh html
struct.in.new.ref html
struct.merge html
study.deployment html
toy.dicom.raw html
toy.load.patient html
vector.product html
vol.copy html
vol.create html
vol.from.bin html
vol.gradient html
vol.in.new.ref html
vol.median html
vol.oversampling html
vol.regrid html
vol.repair html
vol.subsampling html
vol.sum html
xlsx.from.Rdcm html
xlsx.from.dcm 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 (espadon)