* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘spatstat.geom’ ...
** package ‘spatstat.geom’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘gcc-13 (Debian 13.2.0-23) 13.2.0’
make[1]: Entering directory '/tmp/RtmpL0M4Tj/R.INSTALLa07e170261ebd/spatstat.geom/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 areadiff.c -o areadiff.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 auctionbf.c -o auctionbf.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 bdrymask.c -o bdrymask.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 close3pair.c -o close3pair.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 closepair.c -o closepair.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 connectgraph.c -o connectgraph.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 connectpix.c -o connectpix.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 dinfty.c -o dinfty.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 discarea.c -o discarea.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 discs.c -o discs.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 dist2dpath.c -o dist2dpath.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 distan3.c -o distan3.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 distances.c -o distances.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 distmapbin.c -o distmapbin.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 dwpure.c -o dwpure.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 exactPdist.c -o exactPdist.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 exactdist.c -o exactdist.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 fardist.c -o fardist.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 hasclose.c -o hasclose.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 hotrod.c -o hotrod.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 init.c -o init.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 knndistance.c -o knndistance.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 knngrid.c -o knngrid.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 loccum.c -o loccum.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 metricPdist.c -o metricPdist.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 minnnd.c -o minnnd.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 nearestpix.c -o nearestpix.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 nn3Ddist.c -o nn3Ddist.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 nnMDdist.c -o nnMDdist.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 nndistance.c -o nndistance.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 nngrid.c -o nngrid.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 periodic.c -o periodic.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 poly2im.c -o poly2im.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 quasirandom.c -o quasirandom.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 raster.c -o raster.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 rasterfilter.c -o rasterfilter.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 scan.c -o scan.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 seg2pix.c -o seg2pix.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 tabnum.c -o tabnum.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 trigraf.c -o trigraf.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 uniquemap.c -o uniquemap.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 veegraf.c -o veegraf.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 whist.c -o whist.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 xyseg.c -o xyseg.o
gcc-13 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o spatstat.geom.so areadiff.o auctionbf.o bdrymask.o close3pair.o closepair.o connectgraph.o connectpix.o dinfty.o discarea.o discs.o dist2dpath.o distan3.o distances.o distmapbin.o dwpure.o exactPdist.o exactdist.o fardist.o hasclose.o hotrod.o init.o knndistance.o knngrid.o loccum.o metricPdist.o minnnd.o nearestpix.o nn3Ddist.o nnMDdist.o nndistance.o nngrid.o periodic.o poly2im.o quasirandom.o raster.o rasterfilter.o scan.o seg2pix.o tabnum.o trigraf.o uniquemap.o veegraf.o whist.o xyseg.o -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/tmp/RtmpL0M4Tj/R.INSTALLa07e170261ebd/spatstat.geom/src'
make[1]: Entering directory '/tmp/RtmpL0M4Tj/R.INSTALLa07e170261ebd/spatstat.geom/src'
make[1]: Leaving directory '/tmp/RtmpL0M4Tj/R.INSTALLa07e170261ebd/spatstat.geom/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-spatstat.geom/00new/spatstat.geom/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package ‘spatstat.geom’
finding HTML links ... done
Extract.anylist html
Extract.hyperframe html
Extract.im html
Extract.layered html
Extract.listof html
Extract.owin html
Extract.ppp html
Extract.ppx html
Extract.psp html
Extract.quad html
Extract.solist html
Extract.splitppp html
Extract.tess html
Frame html
Math.im html
Math.imlist html
MinkowskiSum html
Replace.im html
Window html
Window.tess html
add.texture html
affine html
affine.im html
affine.owin html
affine.ppp html
affine.psp html
affine.tess html
angles.psp html
anyNA.im html
anylist html
append.psp html
applynbd html
area.owin html
areaGain html
areaLoss html
as.box3 html
as.boxx html
as.colourmap html
as.data.frame.hyperframe html
as.data.frame.im html
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as.data.frame.ppp html
as.data.frame.psp html
as.data.frame.tess html
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as.owin html
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as.ppp html
as.psp html
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as.tess html
bdist.pixels html
bdist.points html
bdist.tiles html
beachcolours html
border html
bounding.box.xy html
boundingbox html
boundingcircle html
box3 html
boxx html
bufftess html
by.im html
by.ppp html
cbind.hyperframe html
centroid.owin html
chop.tess html
clickbox html
clickdist html
clickpoly html
clickppp html
clip.infline html
closepairs html
closepairs.pp3 html
closetriples html
closing html
colourmap html
colouroutputs html
colourtools html
commonGrid html
compatible html
compatible.im html
complement.owin html
concatxy html
connected html
connected.ppp html
connected.tess html
contour.im html
contour.imlist html
convexhull html
convexhull.xy html
convexify html
convexmetric html
convolve.im html
coords html
corners html
covering html
crossdist html
crossdist.default html
crossdist.pp3 html
crossdist.ppp html
crossdist.ppx html
crossdist.psp html
crossing.psp html
cut.im html
cut.ppp html
default.dummy html
delaunay html
delaunayDistance html
deltametric html
diameter html
diameter.box3 html
diameter.boxx html
diameter.owin html
dilated.areas html
dilation html
dirichlet html
dirichletAreas html
dirichletVertices html
dirichletWeights html
disc html
discpartarea html
discretise html
discs html
distfun html
distmap html
distmap.owin html
distmap.ppp html
distmap.psp html
domain html
duplicated.ppp html
edges html
edges2triangles html
edges2vees html
edit.hyperframe html
edit.ppp html
ellipse html
endpoints.psp html
eroded.areas html
erosion html
erosionAny html
eval.im html
ewcdf html
extrapolate.psp html
fardist html
flipxy html
fourierbasis html
framedist.pixels html
funxy html
gridcentres html
gridweights html
grow.boxx html
grow.rectangle html
harmonise html
harmonise.im html
harmonise.owin html
harmoniseLevels html
has.close html
headtail html
hextess html
hist.funxy html
hist.im html
hotrod html
hyperframe html
identify.ppp html
identify.psp html
im html
im.apply html
im.object html
imcov html
incircle html
infline html
inside.boxx html
inside.owin html
integral html
integral.density html
integral.im html
intensity html
intensity.ppp html
intensity.ppx html
intensity.psp html
intensity.quadratcount html
interp.colourmap html
interp.im html
intersect.boxx html
intersect.owin html
intersect.tess html
invoke.metric html
invoke.symbolmap html
is.boxx html
is.connected html
is.connected.ppp html
is.convex html
is.empty html
is.im html
is.linim html
is.linnet html
is.lpp html
is.marked html
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is.multitype html
is.multitype.ppp html
is.owin html
is.ppp html
is.rectangle html
is.subset.owin html
layered html
layerplotargs html
layout.boxes html
lengths_psp html
levelset html
lut html
marks html
marks.psp html
marks.tess html
markstat html
matchingdist html
maxnndist html
mean.ewcdf html
mean.im html
mergeLevels html
methods.box3 html
methods.boxx html
methods.distfun html
methods.funxy html
methods.layered html
methods.pp3 html
methods.ppx html
methods.unitname html
metric.object html
midpoints.psp html
multiplicity.ppp html
nearest.raster.point html
nearestValue html
nearestsegment html
nestsplit html
nncross html
nncross.pp3 html
nncross.ppx html
nndist html
nndist.pp3 html
nndist.ppx html
nndist.psp html
nnfun html
nnmap html
nnmark html
nnwhich html
nnwhich.pp3 html
nnwhich.ppx html
nobjects html
npoints html
nsegments html
nvertices html
opening html
overlap.owin html
owin html
owin.object html
owin2mask html
pHcolourmap html
padimage html
pairdist html
pairdist.default html
pairdist.pp3 html
pairdist.ppp html
pairdist.ppx html
pairdist.psp html
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persp.im html
perspPoints html
pixelcentres html
pixellate html
pixellate.owin html
pixellate.ppp html
pixellate.psp html
pixelquad html
plot.anylist html
plot.colourmap html
plot.hyperframe html
plot.im html
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plot.layered html
plot.listof html
plot.onearrow html
plot.owin html
plot.pp3 html
plot.ppp html
plot.pppmatching html
plot.psp html
plot.quad html
plot.quadratcount html
plot.solist html
plot.splitppp html
plot.symbolmap html
plot.tess html
plot.textstring html
plot.texturemap html
plot.yardstick html
pointsOnLines html
polartess html
pp3 html
ppp html
ppp.object html
pppdist html
pppmatching html
pppmatching.object html
ppx html
print.im html
print.owin html
print.ppp html
print.psp html
print.quad html
progressreport html
project2segment html
project2set html
psp html
psp.object html
psp2mask html
quad.object html
quadratcount html
quadrats html
quadscheme html
quadscheme.logi html
quantess html
quantile.ewcdf html
quantile.im html
quantilefun html
quantilefun.im html
quasirandom html
rQuasi html
raster.x html
rectdistmap html
reflect html
regularpolygon html
relevel.im html
requireversion html
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rescale.im html
rescale.owin html
rescale.ppp html
rescale.psp html
rescue.rectangle html
restrict.colourmap html
rexplode html
rgbim html
ripras html
rjitter html
rlinegrid html
rotate html
rotate.im html
rotate.infline html
rotate.owin html
rotate.ppp html
rotate.psp html
round.ppp html
rounding html
rsyst html
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runifrect html
scalardilate html
scaletointerval html
scanpp html
selfcrossing.psp html
selfcut.psp html
sessionLibs html
setcov html
shift html
shift.im html
shift.owin html
shift.ppp html
shift.ppx html
shift.psp html
sidelengths.owin html
simplepanel html
simplify.owin html
solapply html
solist html
solutionset html
spatdim html
spatstat.geom-deprecated html
spatstat.geom-internal html
spatstat.geom-package html
spatstat.options html
split.hyperframe html
split.im html
split.ppp html
split.ppx html
spokes html
square html
stratrand html
subset.hyperframe html
subset.ppp html
subset.psp html
summary.anylist html
summary.distfun html
summary.im html
summary.listof html
summary.owin html
summary.ppp html
summary.psp html
summary.quad html
summary.solist html
summary.splitppp html
superimpose html
symbolmap html
tess html
test.crossing.psp html
text.ppp html
texturemap html
textureplot html
tile.areas html
tileindex html
tilenames html
tiles html
tiles.empty html
timeTaken html
timed html
transformquantiles html
transmat html
triangulate.owin html
trim.rectangle html
tweak.colourmap html
union.quad html
unique.ppp html
uniquemap.default html
uniquemap.ppp html
unitname html
unmark html
unnormdensity html
unstack.ppp html
unstack.solist html
update.symbolmap html
venn.tess html
vertices html
volume html
weighted.median html
where.max html
whichhalfplane html
whist html
with.hyperframe html
yardstick html
zapsmall.im html
** building package indices
** 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 (spatstat.geom)