* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘alakazam’ ...
** package ‘alakazam’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-14 (Debian 14.2.0-8) 14.2.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpaGRgJf/R.INSTALL30cc2d7ee954e8/alakazam/src'
g++-14 -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 RcppDistance.cpp -o RcppDistance.o
g++-14 -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++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o alakazam.so RcppDistance.o RcppExports.o -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpaGRgJf/R.INSTALL30cc2d7ee954e8/alakazam/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpaGRgJf/R.INSTALL30cc2d7ee954e8/alakazam/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpaGRgJf/R.INSTALL30cc2d7ee954e8/alakazam/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-alakazam/00new/alakazam/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package ‘alakazam’
finding HTML links ... done
ABBREV_AA html
AbundanceCurve-class html
ChangeoClone-class html
DEFAULT_COLORS html
DiversityCurve-class html
EdgeTest-class html
Example10x html
ExampleDb html
ExampleDbChangeo html
ExampleTrees html
IMGT_REGIONS html
IUPAC_CODES html
MRCATest-class html
SingleDb html
alakazam-package html
alakazam html
aliphatic html
alphaDiversity html
aminoAcidProperties html
baseTheme html
buildPhylipLineage html
bulk html
calcCoverage html
calcDiversity html
charge html
checkColumns html
collapseDuplicates html
combineIgphyml html
countClones html
countGenes html
countPatterns html
cpuCount html
estimateAbundance html
extractVRegion html
getAAMatrix html
getDNAMatrix html
getMRCA html
getPathLengths html
getPositionQuality html
getSegment html
graphToPhylo html
gravy html
gridPlot html
finding level-2 HTML links ... done
groupGenes html
isValidAASeq html
junctionAlignment html
makeChangeoClone html
makeTempDir html
maskPositionsByQuality html
maskSeqEnds html
maskSeqGaps html
nonsquareDist html
padSeqEnds html
pairwiseDist html
pairwiseEqual html
permuteLabels html
phyloToGraph html
plotAbundanceCurve html
plotDiversityCurve html
plotDiversityTest html
plotEdgeTest html
plotMRCATest html
plotSubtrees html
polar html
progressBar html
rarefyDiversity html
readChangeoDb html
readFastqDb html
readIgphyml html
seqDist html
seqEqual html
sortGenes html
stoufferMeta html
summarizeSubtrees html
tableEdges html
testDiversity html
testEdges html
testMRCA html
translateDNA html
translateStrings html
writeChangeoDb 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 (alakazam)