* installing to library ‘/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages’
* installing *source* package ‘localScore’ ...
** this is package ‘localScore’ version ‘2.0.3’
** package ‘localScore’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘Debian clang version 19.1.7 (3+b1)’
make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmpn8jl8p/R.INSTALL2766803a2f4cce/localScore/src'
clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -Wno-missing-template-arg-list-after-template-kw -Wdeprecated-literal-operator  -c RcppExports.cpp -o RcppExports.o
clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -Wno-missing-template-arg-list-after-template-kw -Wdeprecated-literal-operator  -c function_wrapper.cpp -o function_wrapper.o
function_wrapper.cpp:175:8: warning: unused variable 'checkOK' [-Wunused-variable]
  175 |   bool checkOK = checkKDMparameters(local_score, sequence_length, score_probabilities, sequence_min_, sequence_max_, score_values_) ;
      |        ^~~~~~~
function_wrapper.cpp:239:5: warning: misleading indentation; statement is not part of the previous 'if' [-Wmisleading-indentation]
  239 |     double p = calcul_karlin(local_score, as<std::vector<double>>(score_probabilities), as<int>(sequence_max_), -as<int>(sequence_min_), (long)sequence_length);
      |     ^
function_wrapper.cpp:236:3: note: previous statement is here
  236 |   if(esp>=0.0)
      |   ^
function_wrapper.cpp:228:8: warning: unused variable 'checkOK' [-Wunused-variable]
  228 |   bool checkOK = checkKDMparameters(local_score, sequence_length, score_probabilities, sequence_min_, sequence_max_, score_values_) ;
      |        ^~~~~~~
function_wrapper.cpp:262:8: warning: unused variable 'checkOK' [-Wunused-variable]
  262 |   bool checkOK = checkKDMparameters(1, 1, score_probabilities, sequence_min_, sequence_max_, score_values_) ;
      |        ^~~~~~~
function_wrapper.cpp:328:8: warning: unused variable 'checkOK' [-Wunused-variable]
  328 |   bool checkOK = checkKDMparameters(local_score, sequence_length, score_probabilities, sequence_min_, sequence_max_, score_values_) ;
      |        ^~~~~~~
function_wrapper.cpp:389:6: warning: misleading indentation; statement is not part of the previous 'if' [-Wmisleading-indentation]
  389 |      double p = calcul_probMaxPartialSum(k, as<std::vector<double>>(score_probabilities), max_score, -min_score);
      |      ^
function_wrapper.cpp:386:3: note: previous statement is here
  386 |   if(k<0)
      |   ^
function_wrapper.cpp:376:8: warning: unused variable 'checkOK' [-Wunused-variable]
  376 |   bool checkOK = checkKDMparameters(1, 1, score_probabilities, sequence_min_, sequence_max_, score_values_) ;
      |        ^~~~~~~
7 warnings generated.
clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -Wno-missing-template-arg-list-after-template-kw -Wdeprecated-literal-operator  -c localScoreC.cpp -o localScoreC.o
localScoreC.cpp:93:7: warning: unused variable 'fixNoScoreMatrixSize' [-Wunused-variable]
   93 |   int fixNoScoreMatrixSize = (numberOfLocalScores==0) ? 1 : 0; // needed to create finalScores Matrix in case of no localScore found
      |       ^~~~~~~~~~~~~~~~~~~~
1 warning generated.
clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -Wno-missing-template-arg-list-after-template-kw -Wdeprecated-literal-operator  -c pValueMethods.cpp -o pValueMethods.o
pValueMethods.cpp:512:16: warning: unused variable 'i' [-Wunused-variable]
  512 |   unsigned int i ;
      |                ^
pValueMethods.cpp:629:10: warning: unused variable 'K_plus' [-Wunused-variable]
  629 |   double K_plus = karlin_parameters[1] ;
      |          ^~~~~~
pValueMethods.cpp:713:10: warning: unused variable 'R' [-Wunused-variable]
  713 |   double R = roots_separated.mod_smaller_one[0].real();
      |          ^
3 warnings generated.
clang++-19 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-devel-clang/Work/build/lib -Wl,-O1 -o localScore.so RcppExports.o function_wrapper.o localScoreC.o pValueMethods.o -L/home/hornik/tmp/R.check/r-devel-clang/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmpn8jl8p/R.INSTALL2766803a2f4cce/localScore/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmpn8jl8p/R.INSTALL2766803a2f4cce/localScore/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmpn8jl8p/R.INSTALL2766803a2f4cce/localScore/src'
installing to /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/00LOCK-localScore/00new/localScore/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** 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 (localScore)