* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘misha’ ...
** this is package ‘misha’ version ‘4.3.6’
** package ‘misha’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’
using C++14
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmplKglRm/R.INSTALL3aed635343af7/misha/src'
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c BinFinder.cpp -o BinFinder.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c BinsManager.cpp -o BinsManager.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c BufferedFile.cpp -o BufferedFile.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c Chain2Interval.cpp -o Chain2Interval.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c Computer2D.cpp -o Computer2D.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c DnaPSSM.cpp -o DnaPSSM.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c FindTracksNIntervals.cpp -o FindTracksNIntervals.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GInterval.cpp -o GInterval.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GInterval2D.cpp -o GInterval2D.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GIntervals.cpp -o GIntervals.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GIntervals2D.cpp -o GIntervals2D.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GIntervalsBigSet.cpp -o GIntervalsBigSet.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GIntervalsBigSet1D.cpp -o GIntervalsBigSet1D.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GIntervalsBigSet2D.cpp -o GIntervalsBigSet2D.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GIntervalsFetcher1D.cpp -o GIntervalsFetcher1D.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GIntervalsFetcher2D.cpp -o GIntervalsFetcher2D.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GIntervalsMeta.cpp -o GIntervalsMeta.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GIntervalsMeta1D.cpp -o GIntervalsMeta1D.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GIntervalsMeta2D.cpp -o GIntervalsMeta2D.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GTrack2DImport.cpp -o GTrack2DImport.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GTrack2DImportContacts.cpp -o GTrack2DImportContacts.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GTrackIntervalsFetcher.cpp -o GTrackIntervalsFetcher.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GTrackLiftover.cpp -o GTrackLiftover.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeArraysCsv.cpp -o GenomeArraysCsv.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeCheckVtrack.cpp -o GenomeCheckVtrack.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeCisDecay.cpp -o GenomeCisDecay.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeComputeStrandAutocorr.cpp -o GenomeComputeStrandAutocorr.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeCreatePwmEnergy.cpp -o GenomeCreatePwmEnergy.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeIntervalUtils.cpp -o GenomeIntervalUtils.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeIteratorIntervals.cpp -o GenomeIteratorIntervals.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeSeqFetch.cpp -o GenomeSeqFetch.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeSeqImport.cpp -o GenomeSeqImport.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeSeqRead.cpp -o GenomeSeqRead.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeSeqScorer.cpp -o GenomeSeqScorer.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeTrack.cpp -o GenomeTrack.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeTrack2D.cpp -o GenomeTrack2D.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeTrack2DCreate.cpp -o GenomeTrack2DCreate.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeTrackApply.cpp -o GenomeTrackApply.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeTrackArrayExtract.cpp -o GenomeTrackArrayExtract.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeTrackArrayImport.cpp -o GenomeTrackArrayImport.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeTrackArrays.cpp -o GenomeTrackArrays.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeTrackBinnedTransform.cpp -o GenomeTrackBinnedTransform.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeTrackComputed.cpp -o GenomeTrackComputed.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeTrackConvert.cpp -o GenomeTrackConvert.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeTrackCreate.cpp -o GenomeTrackCreate.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeTrackCreateComputer2dTest.cpp -o GenomeTrackCreateComputer2dTest.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeTrackCreateSparse.cpp -o GenomeTrackCreateSparse.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeTrackDistribution.cpp -o GenomeTrackDistribution.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeTrackExtract.cpp -o GenomeTrackExtract.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeTrackFindNeighbors.cpp -o GenomeTrackFindNeighbors.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeTrackFixedBin.cpp -o GenomeTrackFixedBin.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeTrackImportMappedseq.cpp -o GenomeTrackImportMappedseq.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeTrackImportWig.cpp -o GenomeTrackImportWig.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeTrackInfo.cpp -o GenomeTrackInfo.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeTrackModify.cpp -o GenomeTrackModify.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeTrackPartition.cpp -o GenomeTrackPartition.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeTrackQuantiles.cpp -o GenomeTrackQuantiles.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeTrackSampler.cpp -o GenomeTrackSampler.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeTrackScreener.cpp -o GenomeTrackScreener.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeTrackSegmentation.cpp -o GenomeTrackSegmentation.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeTrackSmooth.cpp -o GenomeTrackSmooth.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeTrackSparse.cpp -o GenomeTrackSparse.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeTrackSummary.cpp -o GenomeTrackSummary.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeTrackWilcox.cpp -o GenomeTrackWilcox.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeUtils.cpp -o GenomeUtils.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c GenomeUtilsR.cpp -o GenomeUtilsR.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c HiCComputers.cpp -o HiCComputers.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c IncrementalWilcox.cpp -o IncrementalWilcox.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c IntervalsImport.cpp -o IntervalsImport.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c IntervalsLiftover.cpp -o IntervalsLiftover.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c KmerCounter.cpp -o KmerCounter.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c PWMScorer.cpp -o PWMScorer.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c PssmSet.cpp -o PssmSet.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c System.cpp -o System.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c TGLException.cpp -o TGLException.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c TrackExpressionBigSet1DIterator.cpp -o TrackExpressionBigSet1DIterator.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c TrackExpressionBigSet2DIterator.cpp -o TrackExpressionBigSet2DIterator.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c TrackExpressionCartesianGridIterator.cpp -o TrackExpressionCartesianGridIterator.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c TrackExpressionFixedBinIterator.cpp -o TrackExpressionFixedBinIterator.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c TrackExpressionFixedRectIterator.cpp -o TrackExpressionFixedRectIterator.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c TrackExpressionIntervals1DIterator.cpp -o TrackExpressionIntervals1DIterator.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c TrackExpressionIntervals2DIterator.cpp -o TrackExpressionIntervals2DIterator.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c TrackExpressionIteratorBase.cpp -o TrackExpressionIteratorBase.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c TrackExpressionScanner.cpp -o TrackExpressionScanner.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c TrackExpressionSparseIterator.cpp -o TrackExpressionSparseIterator.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c TrackExpressionTrackRectsIterator.cpp -o TrackExpressionTrackRectsIterator.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c TrackExpressionVars.cpp -o TrackExpressionVars.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c TrackVars.cpp -o TrackVars.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c Wig.cpp -o Wig.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c misha-init.cpp -o misha-init.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c rdbinterval.cpp -o rdbinterval.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c rdbprogress.cpp -o rdbprogress.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c rdbutils.cpp -o rdbutils.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c rtest.cpp -o rtest.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c strutil.cpp -o strutil.o
g++-14 -std=gnu++14 -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 -pedantic -mtune=native -c version.cpp -o version.o
g++-14 -std=gnu++14 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o misha.so BinFinder.o BinsManager.o BufferedFile.o Chain2Interval.o Computer2D.o DnaPSSM.o FindTracksNIntervals.o GInterval.o GInterval2D.o GIntervals.o GIntervals2D.o GIntervalsBigSet.o GIntervalsBigSet1D.o GIntervalsBigSet2D.o GIntervalsFetcher1D.o GIntervalsFetcher2D.o GIntervalsMeta.o GIntervalsMeta1D.o GIntervalsMeta2D.o GTrack2DImport.o GTrack2DImportContacts.o GTrackIntervalsFetcher.o GTrackLiftover.o GenomeArraysCsv.o GenomeCheckVtrack.o GenomeCisDecay.o GenomeComputeStrandAutocorr.o GenomeCreatePwmEnergy.o GenomeIntervalUtils.o GenomeIteratorIntervals.o GenomeSeqFetch.o GenomeSeqImport.o GenomeSeqRead.o GenomeSeqScorer.o GenomeTrack.o GenomeTrack2D.o GenomeTrack2DCreate.o GenomeTrackApply.o GenomeTrackArrayExtract.o GenomeTrackArrayImport.o GenomeTrackArrays.o GenomeTrackBinnedTransform.o GenomeTrackComputed.o GenomeTrackConvert.o GenomeTrackCreate.o GenomeTrackCreateComputer2dTest.o GenomeTrackCreateSparse.o GenomeTrackDistribution.o GenomeTrackExtract.o GenomeTrackFindNeighbors.o GenomeTrackFixedBin.o GenomeTrackImportMappedseq.o GenomeTrackImportWig.o GenomeTrackInfo.o GenomeTrackModify.o GenomeTrackPartition.o GenomeTrackQuantiles.o GenomeTrackSampler.o GenomeTrackScreener.o GenomeTrackSegmentation.o GenomeTrackSmooth.o GenomeTrackSparse.o GenomeTrackSummary.o GenomeTrackWilcox.o GenomeUtils.o GenomeUtilsR.o HiCComputers.o IncrementalWilcox.o IntervalsImport.o IntervalsLiftover.o KmerCounter.o PWMScorer.o PssmSet.o System.o TGLException.o TrackExpressionBigSet1DIterator.o TrackExpressionBigSet2DIterator.o TrackExpressionCartesianGridIterator.o TrackExpressionFixedBinIterator.o TrackExpressionFixedRectIterator.o TrackExpressionIntervals1DIterator.o TrackExpressionIntervals2DIterator.o TrackExpressionIteratorBase.o TrackExpressionScanner.o TrackExpressionSparseIterator.o TrackExpressionTrackRectsIterator.o TrackExpressionVars.o TrackVars.o Wig.o misha-init.o rdbinterval.o rdbprogress.o rdbutils.o rtest.o strutil.o version.o -lpthread -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmplKglRm/R.INSTALL3aed635343af7/misha/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmplKglRm/R.INSTALL3aed635343af7/misha/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmplKglRm/R.INSTALL3aed635343af7/misha/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-misha/00new/misha/libs
** R
** exec
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package ‘misha’
finding HTML links ... done
dot-misha html
gbins.quantiles html
gbins.summary html
gcis_decay html
gcluster.run html
gcompute_strands_autocorr html
gdb.create html
gdb.create_genome html
gdb.get_readonly_attrs html
gdb.init html
gdb.reload html
gdb.set_readonly_attrs html
gdir.cd html
gdir.create html
gdir.cwd html
gdir.rm html
gdist html
gextract html
gintervals.2d html
gintervals.2d.all html
gintervals.2d.band_intersect html
gintervals html
gintervals.all html
gintervals.canonic html
gintervals.chrom_sizes html
gintervals.diff html
gintervals.exists html
gintervals.force_range html
gintervals.import_genes html
gintervals.intersect html
gintervals.is.bigset html
gintervals.liftover html
gintervals.load html
gintervals.load_chain html
gintervals.ls html
gintervals.mapply html
gintervals.neighbors html
gintervals.quantiles html
gintervals.rbind html
gintervals.rm html
gintervals.save html
gintervals.summary html
gintervals.union html
gintervals.update html
giterator.cartesian_grid html
giterator.intervals html
glookup html
gpartition html
gquantiles html
grevcomp html
gsample html
gscreen html
gsegment html
gseq.extract html
gsummary html
gtrack.2d.create html
gtrack.2d.import html
gtrack.2d.import_contacts html
gtrack.array.extract html
gtrack.array.get_colnames html
gtrack.array.import html
gtrack.array.set_colnames html
gtrack.attr.export html
gtrack.attr.get html
gtrack.attr.import html
gtrack.attr.set html
gtrack.convert html
gtrack.create html
gtrack.create_dirs html
gtrack.create_pwm_energy html
gtrack.create_sparse html
gtrack.exists html
gtrack.import html
gtrack.import_mappedseq html
gtrack.import_set html
gtrack.info html
gtrack.liftover html
gtrack.lookup html
gtrack.ls html
gtrack.modify html
gtrack.rm html
gtrack.smooth html
gtrack.var.get html
gtrack.var.ls html
gtrack.var.rm html
gtrack.var.set html
gvtrack.array.slice html
gvtrack.create html
gvtrack.info html
gvtrack.iterator.2d html
gvtrack.iterator html
gvtrack.ls html
gvtrack.rm html
gwget html
gwilcox html
misha-package html
pipe 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 (misha)