* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘neuroim’ ...
** package ‘neuroim’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-13 (Debian 13.2.0-13) 13.2.0’
make[1]: Entering directory '/tmp/RtmpEgUtD4/R.INSTALL390c697201e407/neuroim/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 indexFuns.cpp -o indexFuns.o
g++-13 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o neuroim.so RcppExports.o indexFuns.o -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/tmp/RtmpEgUtD4/R.INSTALL390c697201e407/neuroim/src'
make[1]: Entering directory '/tmp/RtmpEgUtD4/R.INSTALL390c697201e407/neuroim/src'
make[1]: Leaving directory '/tmp/RtmpEgUtD4/R.INSTALL390c697201e407/neuroim/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-neuroim/00new/neuroim/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
Creating a new generic function for ‘as.mask’ in package ‘neuroim’
** help
*** installing help indices
converting help for package ‘neuroim’
finding HTML links ... done
AFNIFileDescriptor-class html
AFNIMetaInfo-class html
AxisSet-class html
AxisSet1D-class html
AxisSet2D-class html
AxisSet3D-class html
AxisSet4D-class html
AxisSet5D-class html
Base-class html
BaseMetaInfo-class html
BaseSource-class html
BinaryReader-class html
BinaryReader html
BinaryWriter-class html
BootstrapSearchlight html
BrainBucket-class html
BrainBucketSource-class html
BrainData-class html
BrainFileDescriptor-class html
BrainFileSource-class html
BrainMetaInfo-class html
BrainSlice-class html
BrainSlice html
BrainSource-class html
BrainSpace-class html
BrainSpace html
BrainSurface-class html
BrainSurfaceSource-class html
BrainSurfaceVector-class html
BrainSurfaceVectorSource-class html
BrainVector-class html
BrainVectorSource-class html
BrainVectorSource html
BrainVolume-class html
BrainVolume html
BrainVolumeSource-class html
ClusteredBrainVolume-class html
ColumnReader-class html
ColumnReader html
DenseBrainVector-class html
DenseBrainVolume-class html
FileMetaInfo-class html
REDIRECT:topic Previous alias or file overwritten by alias: /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-neuroim/00new/neuroim/help/AFNIMetaInfo-class.html
FreeSurferSurfaceGeometryMetaInfo-class
html
FreesurferAsciiSurfaceFileDescriptor-class
html
IndexLookupVolume-class html
Kernel-class html
Kernel html
Layer-class html
Layer html
LogicalBrainVolume-class html
MNI_SPACE_1MM html
NIMLSurfaceDataMetaInfo-class html
NIMLSurfaceDataMetaInfo html
NIMLSurfaceFileDescriptor-class html
NIfTIFileDescriptor-class html
NIfTIMetaInfo-class html
NamedAxis-class html
NullMetaInfo-class html
ROIVolume-class html
ROIVolume html
RandomSearchlight html
RegionCube html
RegionSphere html
RegionSquare html
Searchlight html
SparseBrainVector-class html
SparseBrainVectorSource-class html
SparseBrainVolume-class html
SurfaceDataMetaInfo-class html
SurfaceDataMetaInfo html
SurfaceGeometryMetaInfo-class html
SurfaceGeometryMetaInfo html
addDim-methods html
as-methods html
as.array-BrainData-method html
as.list-methods html
as.logical-methods html
as.mask-methods html
as.matrix-BrainData-method html
as.matrix-methods html
as.numeric-methods html
as.raster-methods html
as.sparse-methods html
as.vector-BrainData-method html
axes-methods html
axisToIndex-methods html
bounds-methods html
close-methods html
clusterCenters-methods html
concat-methods html
connComp-methods html
connComp3D html
coordToGrid-methods html
coordToIndex-methods html
coords-methods html
dataFile-methods html
dataFileMatches-methods html
dataReader-methods html
dim-BrainData-method html
dim-BrainSpace-method html
dim-FileMetaInfo-method html
dropDim-methods html
eachSeries-methods html
eachSlice-methods html
eachVolume-methods html
fileMatches-methods html
fill-methods html
gridToCoord-methods html
gridToIndex-methods html
headerFile-methods html
headerFileMatches-methods html
image-methods html
imageGrid html
indexToCoord-methods html
indexToGrid-methods html
indices-methods html
internal-methods html
inverseTrans-methods html
length-methods html
loadBucket html
loadData-methods html
loadFSSurface html
loadSurface html
loadVector html
loadVolume html
loadVolumeList html
lookup-methods html
makeVector html
makeVolume html
map-methods html
mapToColors html
matchAnatomy2D html
matchAnatomy3D html
matrixToVolumeList html
mergePartitions-methods html
names-methods html
ndim-methods html
neuroim html
numClusters-methods html
origin-methods html
overlay-methods html
partition-methods html
permMat-methods html
pick-methods html
print-AxisSet2D-method html
print-AxisSet3D-method html
print-NamedAxis-method html
print-methods html
readAFNIHeader html
readColumns-methods html
readElements-methods html
readHeader html
readMetaInfo-methods html
render-methods html
renderSlice-methods html
scaleSeries-methods html
series-methods html
seriesIter html
show-AxisSet1D-method html
show-AxisSet2D-method html
show-AxisSet3D-method html
show-AxisSet4D-method html
show-BaseMetaInfo-method html
show-BrainSpace-method html
show-BrainVector-method html
show-BrainVectorSource-method html
show-BrainVolume-method html
show-FileMetaInfo-method html
show-NamedAxis-method html
show-NullMetaInfo-method html
show-ROIVolume-method html
show-SparseBrainVector-method html
show-SurfaceDataMetaInfo-method html
show-SurfaceGeometryMetaInfo-method html
slice-methods html
sliceData html
space-methods html
spacing-methods html
splitFill-methods html
splitReduce-methods html
splitScale-methods html
stripExtension-methods html
sub-BrainBucket-index-missing-ANY-method
html
sub-ROIVolume-numeric-missing-ANY-method
html
sub-SparseBrainVector-missing-missing-ANY-method
html
sub-SparseBrainVector-missing-numeric-ANY-method
html
sub-SparseBrainVector-numeric-missing-ANY-method
html
sub-SparseBrainVector-numeric-numeric-ANY-method
html
sub-SparseBrainVolume-matrix-missing-ANY-method
html
sub-SparseBrainVolume-missing-missing-ANY-method
html
sub-SparseBrainVolume-missing-numeric-ANY-method
html
sub-SparseBrainVolume-numeric-missing-missing-method
html
sub-SparseBrainVolume-numeric-numeric-ANY-method
html
sub-sub-BrainBucket-index-missing-method
html
subVector-methods html
takeSeries-methods html
takeVolume-methods html
tesselate-methods html
trans-methods html
values-methods html
voxels-methods html
writeElements-methods html
writeVector-methods html
writeVolume-methods 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 (neuroim)