downloading reverse dependencies ...
downloading DBHC_0.0.3.tar.gz ... ok
downloading clickb_0.1.tar.gz ... ok
downloading tna_0.4.0.tar.gz ... ok

installing dependencies ‘DiscreteWeibull’, ‘ggseqplot’,
  ‘RcppHungarian’, ‘seqHMM’

begin installing package ‘ggseqplot’
begin installing package ‘RcppHungarian’
begin installing package ‘DiscreteWeibull’
* installing *source* package ‘DiscreteWeibull’ ...
** this is package ‘DiscreteWeibull’ version ‘1.1’
** package ‘DiscreteWeibull’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (DiscreteWeibull)
* installing *source* package ‘RcppHungarian’ ...
** this is package ‘RcppHungarian’ version ‘0.3’
** package ‘RcppHungarian’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpB8GjNw/R.INSTALL33da631b9352ae/RcppHungarian/src'
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I../inst/include/ -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c RcppExports.cpp -o RcppExports.o
In file included from RcppExports.cpp:4:
../inst/include/RcppHungarian.h: In member function ‘void HungarianAlgorithm::assignmentoptimal(int*, double*, double*, int, int)’:
../inst/include/RcppHungarian.h:169:11: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation]
  169 |           if (fabs(distMatrix[row + nOfRows*col]) < DBL_EPSILON)
      |           ^~
../inst/include/RcppHungarian.h:177:13: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
  177 |             for (row = 0; row<nOfRows; row++)
      |             ^~~
../inst/include/RcppHungarian.h: In member function ‘void HungarianAlgorithm::step2b(int*, double*, bool*, bool*, bool*, bool*, bool*, int, int, int)’:
../inst/include/RcppHungarian.h:254:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
  254 |     for (col = 0; col<nOfColumns; col++)
      |     ^~~
../inst/include/RcppHungarian.h:258:7: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
  258 |       if (nOfCoveredColumns == minDim)
      |       ^~
../inst/include/RcppHungarian.h: In member function ‘void HungarianAlgorithm::step3(int*, double*, bool*, bool*, bool*, bool*, bool*, int, int, int)’:
../inst/include/RcppHungarian.h:288:15: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
  288 |               for (starCol = 0; starCol<nOfColumns; starCol++)
      |               ^~~
../inst/include/RcppHungarian.h:292:17: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
  292 |                 if (starCol == nOfColumns) /* no starred zero found */
      |                 ^~
../inst/include/RcppHungarian.h: In member function ‘void HungarianAlgorithm::step4(int*, double*, bool*, bool*, bool*, bool*, bool*, int, int, int, int, int)’:
../inst/include/RcppHungarian.h:326:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
  326 |     for (starRow = 0; starRow<nOfRows; starRow++)
      |     ^~~
../inst/include/RcppHungarian.h:330:7: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
  330 |       while (starRow<nOfRows)
      |       ^~~~~
../inst/include/RcppHungarian.h:337:9: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
  337 |         for (primeCol = 0; primeCol<nOfColumns; primeCol++)
      |         ^~~
../inst/include/RcppHungarian.h:342:11: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
  342 |           newStarMatrix[primeRow + nOfRows*primeCol] = true;
      |           ^~~~~~~~~~~~~
../inst/include/RcppHungarian.h: In member function ‘void HungarianAlgorithm::step5(int*, double*, bool*, bool*, bool*, bool*, bool*, int, int, int)’:
../inst/include/RcppHungarian.h:374:9: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
  374 |         for (col = 0; col<nOfColumns; col++)
      |         ^~~
../inst/include/RcppHungarian.h:383:11: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
  383 |           for (row = 0; row<nOfRows; row++)
      |           ^~~
../inst/include/RcppHungarian.h:383:11: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
../inst/include/RcppHungarian.h:389:13: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
  389 |             for (col = 0; col<nOfColumns; col++)
      |             ^~~
../inst/include/RcppHungarian.h:389:13: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
../inst/include/RcppHungarian.h:395:15: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
  395 |               step3(assignment, distMatrix, starMatrix, newStarMatrix, primeMatrix, coveredColumns, coveredRows, nOfRows, nOfColumns, minDim);
      |               ^~~~~
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I../inst/include/ -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c hungarian.cpp -o hungarian.o
In file included from hungarian.cpp:2:
../inst/include/RcppHungarian.h: In member function ‘void HungarianAlgorithm::assignmentoptimal(int*, double*, double*, int, int)’:
../inst/include/RcppHungarian.h:169:11: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation]
  169 |           if (fabs(distMatrix[row + nOfRows*col]) < DBL_EPSILON)
      |           ^~
../inst/include/RcppHungarian.h:177:13: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
  177 |             for (row = 0; row<nOfRows; row++)
      |             ^~~
../inst/include/RcppHungarian.h: In member function ‘void HungarianAlgorithm::step2b(int*, double*, bool*, bool*, bool*, bool*, bool*, int, int, int)’:
../inst/include/RcppHungarian.h:254:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
  254 |     for (col = 0; col<nOfColumns; col++)
      |     ^~~
../inst/include/RcppHungarian.h:258:7: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
  258 |       if (nOfCoveredColumns == minDim)
      |       ^~
../inst/include/RcppHungarian.h: In member function ‘void HungarianAlgorithm::step3(int*, double*, bool*, bool*, bool*, bool*, bool*, int, int, int)’:
../inst/include/RcppHungarian.h:288:15: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
  288 |               for (starCol = 0; starCol<nOfColumns; starCol++)
      |               ^~~
../inst/include/RcppHungarian.h:292:17: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
  292 |                 if (starCol == nOfColumns) /* no starred zero found */
      |                 ^~
../inst/include/RcppHungarian.h: In member function ‘void HungarianAlgorithm::step4(int*, double*, bool*, bool*, bool*, bool*, bool*, int, int, int, int, int)’:
../inst/include/RcppHungarian.h:326:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
  326 |     for (starRow = 0; starRow<nOfRows; starRow++)
      |     ^~~
../inst/include/RcppHungarian.h:330:7: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
  330 |       while (starRow<nOfRows)
      |       ^~~~~
../inst/include/RcppHungarian.h:337:9: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
  337 |         for (primeCol = 0; primeCol<nOfColumns; primeCol++)
      |         ^~~
../inst/include/RcppHungarian.h:342:11: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
  342 |           newStarMatrix[primeRow + nOfRows*primeCol] = true;
      |           ^~~~~~~~~~~~~
../inst/include/RcppHungarian.h: In member function ‘void HungarianAlgorithm::step5(int*, double*, bool*, bool*, bool*, bool*, bool*, int, int, int)’:
../inst/include/RcppHungarian.h:374:9: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
  374 |         for (col = 0; col<nOfColumns; col++)
      |         ^~~
../inst/include/RcppHungarian.h:383:11: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
  383 |           for (row = 0; row<nOfRows; row++)
      |           ^~~
../inst/include/RcppHungarian.h:383:11: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
../inst/include/RcppHungarian.h:389:13: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
  389 |             for (col = 0; col<nOfColumns; col++)
      |             ^~~
../inst/include/RcppHungarian.h:389:13: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
../inst/include/RcppHungarian.h:395:15: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
  395 |               step3(assignment, distMatrix, starMatrix, newStarMatrix, primeMatrix, coveredColumns, coveredRows, nOfRows, nOfColumns, minDim);
      |               ^~~~~
g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o RcppHungarian.so RcppExports.o hungarian.o -L/home/hornik/tmp/R/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpB8GjNw/R.INSTALL33da631b9352ae/RcppHungarian/src'
installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-RcppHungarian/00new/RcppHungarian/libs
** R
** 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 (RcppHungarian)
* installing *source* package ‘ggseqplot’ ...
** this is package ‘ggseqplot’ version ‘0.8.6’
** package ‘ggseqplot’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (ggseqplot)
begin installing package ‘seqHMM’
* installing *source* package ‘seqHMM’ ...
** this is package ‘seqHMM’ version ‘2.0.0’
** using staged installation
** libs
using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp6S26Q7/R.INSTALL33db0e439ddc0c/seqHMM/src'
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c EM_mnhmm.cpp -o EM_mnhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c EM_nhmm.cpp -o EM_nhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c R_EM_fanhmm.cpp -o R_EM_fanhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c R_EM_mfanhmm.cpp -o R_EM_mfanhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c R_EM_mnhmm.cpp -o R_EM_mnhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c R_EM_nhmm.cpp -o R_EM_nhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c R_backward_fanhmm.cpp -o R_backward_fanhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c R_backward_mfanhmm.cpp -o R_backward_mfanhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c R_backward_mnhmm.cpp -o R_backward_mnhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c R_backward_nhmm.cpp -o R_backward_nhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c R_forward_fanhmm.cpp -o R_forward_fanhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c R_forward_mfanhmm.cpp -o R_forward_mfanhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c R_forward_mnhmm.cpp -o R_forward_mnhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c R_forward_nhmm.cpp -o R_forward_nhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c R_log_objective_fanhmm.cpp -o R_log_objective_fanhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c R_log_objective_mfanhmm.cpp -o R_log_objective_mfanhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c R_log_objective_mnhmm.cpp -o R_log_objective_mnhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c R_log_objective_nhmm.cpp -o R_log_objective_nhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c R_loglik_fanhmm.cpp -o R_loglik_fanhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c R_loglik_mfanhmm.cpp -o R_loglik_mfanhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c R_loglik_mnhmm.cpp -o R_loglik_mnhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c R_loglik_nhmm.cpp -o R_loglik_nhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c R_predict_fanhmm.cpp -o R_predict_fanhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c R_predict_mfanhmm.cpp -o R_predict_mfanhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c R_predict_mnhmm.cpp -o R_predict_mnhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c R_predict_nhmm.cpp -o R_predict_nhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c R_simulate_fanhmm.cpp -o R_simulate_fanhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c R_simulate_mfanhmm.cpp -o R_simulate_mfanhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c R_simulate_mnhmm.cpp -o R_simulate_mnhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c R_simulate_nhmm.cpp -o R_simulate_nhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c R_viterbi_fanhmm.cpp -o R_viterbi_fanhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c R_viterbi_mfanhmm.cpp -o R_viterbi_mfanhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c R_viterbi_mnhmm.cpp -o R_viterbi_mnhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c R_viterbi_nhmm.cpp -o R_viterbi_nhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c RcppExports.cpp -o RcppExports.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c cost_matrix.cpp -o cost_matrix.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c create_Q.cpp -o create_Q.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c eta_to_gamma.cpp -o eta_to_gamma.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c fanhmm.cpp -o fanhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c fast_quantiles.cpp -o fast_quantiles.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c get_W_idx.cpp -o get_W_idx.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c get_parameters.cpp -o get_parameters.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c joint_probability.cpp -o joint_probability.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c list_to_field.cpp -o list_to_field.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c logSumExp.cpp -o logSumExp.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c mfanhmm.cpp -o mfanhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c mnhmm.cpp -o mnhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c nhmm.cpp -o nhmm.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c pre2-EM.cpp -o pre2-EM.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c pre2-forwardbackward.cpp -o pre2-forwardbackward.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c pre2-log_EM.cpp -o pre2-log_EM.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c pre2-log_forwardbackward.cpp -o pre2-log_forwardbackward.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c pre2-log_objective.cpp -o pre2-log_objective.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c pre2-loglik.cpp -o pre2-loglik.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c pre2-objective.cpp -o pre2-objective.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c pre2-optCoef.cpp -o pre2-optCoef.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c pre2-viterbi.cpp -o pre2-viterbi.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c reparma.cpp -o reparma.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c sample.cpp -o sample.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c softmax.cpp -o softmax.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c sum_to_zero.cpp -o sum_to_zero.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/nloptr/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fopenmp -fpic  -g -O2 -Wall -pedantic -mtune=native   -c viterbi.cpp -o viterbi.o
g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o seqHMM.so EM_mnhmm.o EM_nhmm.o R_EM_fanhmm.o R_EM_mfanhmm.o R_EM_mnhmm.o R_EM_nhmm.o R_backward_fanhmm.o R_backward_mfanhmm.o R_backward_mnhmm.o R_backward_nhmm.o R_forward_fanhmm.o R_forward_mfanhmm.o R_forward_mnhmm.o R_forward_nhmm.o R_log_objective_fanhmm.o R_log_objective_mfanhmm.o R_log_objective_mnhmm.o R_log_objective_nhmm.o R_loglik_fanhmm.o R_loglik_mfanhmm.o R_loglik_mnhmm.o R_loglik_nhmm.o R_predict_fanhmm.o R_predict_mfanhmm.o R_predict_mnhmm.o R_predict_nhmm.o R_simulate_fanhmm.o R_simulate_mfanhmm.o R_simulate_mnhmm.o R_simulate_nhmm.o R_viterbi_fanhmm.o R_viterbi_mfanhmm.o R_viterbi_mnhmm.o R_viterbi_nhmm.o RcppExports.o cost_matrix.o create_Q.o eta_to_gamma.o fanhmm.o fast_quantiles.o get_W_idx.o get_parameters.o joint_probability.o list_to_field.o logSumExp.o mfanhmm.o mnhmm.o nhmm.o pre2-EM.o pre2-forwardbackward.o pre2-log_EM.o pre2-log_forwardbackward.o pre2-log_objective.o pre2-loglik.o pre2-objective.o pre2-optCoef.o pre2-viterbi.o reparma.o sample.o softmax.o sum_to_zero.o viterbi.o -llapack -L/home/hornik/tmp/R/lib -lRblas -lgfortran -lm -lquadmath -fopenmp -L/home/hornik/tmp/R/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp6S26Q7/R.INSTALL33db0e439ddc0c/seqHMM/src'
installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-seqHMM/00new/seqHMM/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 (seqHMM)

checking seqHMM_2.0.0.tar.gz ...
checking DBHC_0.0.3.tar.gz ...
checking clickb_0.1.tar.gz ...
checking tna_0.4.0.tar.gz ...

Depends:
Package: seqHMM
  Depends: R (>= 4.1.0)
  Imports: checkmate, cli, data.table, future.apply, ggplot2,
    ggseqplot, graphics, grDevices, grid, gridBase, igraph, lhs,
    Matrix, methods, nloptr, numDeriv, patchwork, progressr, Rcpp (>=
    0.12.0), RcppHungarian, rlang, stats, TraMineR (>= 2.2-7), utils
  LinkingTo: nloptr, Rcpp (>= 0.12.0), RcppArmadillo

Timings:
          user system elapsed
seqHMM 619.709 29.231 563.445

Results:
Check status summary:
                  NOTE OK
  Source packages    1  0
  Reverse depends    0  3

Check results summary:
seqHMM ... NOTE
* checking CRAN incoming feasibility ... [6s/9s] NOTE
rdepends_clickb ... OK
rdepends_DBHC ... OK
rdepends_tna ... OK

Check results changes:
Package: DBHC
Check: CRAN incoming feasibility
Old result: NOTE