* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘jrSiCKLSNMF’ ...
** this is package ‘jrSiCKLSNMF’ version ‘1.2.3’
** package ‘jrSiCKLSNMF’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-14 (Debian 14.3.0-5) 14.3.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpXOUBvU/R.INSTALL32b7fe24f085bc/jrSiCKLSNMF/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'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppProgress/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c RcppExports.cpp -o RcppExports.o
In file included from /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include/RcppArmadillo.h:29,
                 from RcppExports.cpp:4:
/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include/RcppArmadillo/version/arma.h:71:153: note: ‘#pragma message: Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.’
   71 |         #pragma message("Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.")
      |                                                                                                                                                         ^
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'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppProgress/include' -I/usr/local/include -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c jrSiCKLSNMF.cpp -o jrSiCKLSNMF.o
In file included from /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include/RcppArmadillo.h:29,
                 from jrSiCKLSNMF.cpp:2:
/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include/RcppArmadillo/version/arma.h:71:153: note: ‘#pragma message: Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.’
   71 |         #pragma message("Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.")
      |                                                                                                                                                         ^
g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o jrSiCKLSNMF.so RcppExports.o jrSiCKLSNMF.o -fopenmp -llapack -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpXOUBvU/R.INSTALL32b7fe24f085bc/jrSiCKLSNMF/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpXOUBvU/R.INSTALL32b7fe24f085bc/jrSiCKLSNMF/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpXOUBvU/R.INSTALL32b7fe24f085bc/jrSiCKLSNMF/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-jrSiCKLSNMF/00new/jrSiCKLSNMF/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 ‘jrSiCKLSNMF’
    finding HTML links ... done
    AddSickleJrMetadata                     html  
    BuildKNNGraphLaplacians                 html  
    BuildSNNGraphLaplacians                 html  
    CalculateUMAPSickleJr                   html  
    ClusterSickleJr                         html  
    CreateSickleJr                          html  
    DetermineClusters                       html  
    DetermineDFromIRLBA                     html  
    GenerateWmatricesandHmatrix             html  
    MinibatchDiagnosticPlot                 html  
    NormalizeCountMatrices                  html  
    PlotLossvsLatentFactors                 html  
    PlotSickleJrUMAP                        html  
    RunjrSiCKLSNMF                          html  
    SetLambdasandRowReg                     html  
    SetWandHfromWHinitials                  html  
    SickleJr-class                          html  
    SimData                                 html  
    SimSickleJrSmall                        html  
    jrSiCKLSNMF                             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 (jrSiCKLSNMF)