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### Running command:
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###   /home/rapidbuild/bbs-3.22-bioc-rapid/R/bin/R CMD INSTALL openCyto
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* installing to library ‘/media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library’
* installing *source* package ‘openCyto’ ...
** this is package ‘openCyto’ version ‘2.21.0’
** using staged installation
** libs
using C++ compiler: ‘g++ (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0’
using C++17
g++ -std=gnu++17 -I"/home/rapidbuild/bbs-3.22-bioc-rapid/R/include" -DNDEBUG  -I'/media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library/cpp11/include' -I'/media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library/BH/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c Cdqrls.cpp -o Cdqrls.o
Cdqrls.cpp: In function ‘SEXPREC* Cdqrls(SEXP, SEXP, SEXP)’:
Cdqrls.cpp:43:3: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
   43 |   for (R_xlen_t i = 0 ; i < XLENGTH(x) ; i++)
      |   ^~~
Cdqrls.cpp:46:5: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
   46 |     rptr = REAL(y);
      |     ^~~~
Cdqrls.cpp:47:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
   47 |     for (R_xlen_t i = 0 ; i < XLENGTH(y) ; i++)
      |     ^~~
Cdqrls.cpp:50:7: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
   50 |       const char *ansNms[] = {"qr", "coefficients", "residuals", "effects",
      |       ^~~~~
Cdqrls.cpp:72:7: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
   72 |       for(int i = 0; i < p; i++)
      |       ^~~
Cdqrls.cpp:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
   74 |         SET_VECTOR_ELT(ans, 8, Rf_ScalarLogical(pivoted));
      |         ^~~~~~~~~~~~~~
g++ -std=gnu++17 -I"/home/rapidbuild/bbs-3.22-bioc-rapid/R/include" -DNDEBUG  -I'/media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library/cpp11/include' -I'/media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library/BH/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c Hungarian.cpp -o Hungarian.o
g++ -std=gnu++17 -I"/home/rapidbuild/bbs-3.22-bioc-rapid/R/include" -DNDEBUG  -I'/media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library/cpp11/include' -I'/media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library/BH/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c cpp11.cpp -o cpp11.o
g++ -std=gnu++17 -I"/home/rapidbuild/bbs-3.22-bioc-rapid/R/include" -DNDEBUG  -I'/media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library/cpp11/include' -I'/media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library/BH/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c lm_wfit.cpp -o lm_wfit.o
g++ -std=gnu++17 -I"/home/rapidbuild/bbs-3.22-bioc-rapid/R/include" -DNDEBUG  -I'/media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library/cpp11/include' -I'/media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library/BH/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c misc.cpp -o misc.o
g++ -std=gnu++17 -I"/home/rapidbuild/bbs-3.22-bioc-rapid/R/include" -DNDEBUG  -I'/media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library/cpp11/include' -I'/media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library/BH/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c rlm.cpp -o rlm.o
In file included from /media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library/BH/include/boost/mpl/aux_/na_assert.hpp:23,
                 from /media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library/BH/include/boost/mpl/arg.hpp:25,
                 from /media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library/BH/include/boost/mpl/placeholders.hpp:24,
                 from /media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library/BH/include/boost/accumulators/statistics/median.hpp:11,
                 from rlm.cpp:5:
/media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of ‘assert_arg’ [-Wparentheses]
  194 | failed ************ (Pred::************
      |                     ^~~~~~~~~~~~~~~~~~~
  195 |       assert_arg( void (*)(Pred), typename assert_arg_pred<Pred>::type )
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  196 |     );
      |     ~                
/media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library/BH/include/boost/mpl/assert.hpp:194:21: note: remove parentheses
  194 | failed ************ (Pred::************
      |                     ^~~~~~~~~~~~~~~~~~~
      |                     -
  195 |       assert_arg( void (*)(Pred), typename assert_arg_pred<Pred>::type )
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  196 |     );
      |     ~                
      |     -
/media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of ‘assert_not_arg’ [-Wparentheses]
  199 | failed ************ (boost::mpl::not_<Pred>::************
      |                     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  200 |       assert_not_arg( void (*)(Pred), typename assert_arg_pred_not<Pred>::type )
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  201 |     );
      |     ~                
/media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library/BH/include/boost/mpl/assert.hpp:199:21: note: remove parentheses
  199 | failed ************ (boost::mpl::not_<Pred>::************
      |                     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
      |                     -
  200 |       assert_not_arg( void (*)(Pred), typename assert_arg_pred_not<Pred>::type )
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  201 |     );
      |     ~                
      |     -
rlm.cpp: In function ‘cpp11::list rlm_cpp(cpp11::doubles_matrix<>, cpp11::doubles, int)’:
rlm.cpp:52:10: warning: ‘scale’ may be used uninitialized [-Wmaybe-uninitialized]
   52 |   double scale;
      |          ^~~~~
g++ -std=gnu++17 -I"/home/rapidbuild/bbs-3.22-bioc-rapid/R/include" -DNDEBUG  -I'/media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library/cpp11/include' -I'/media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library/BH/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c solve_LSAP.cpp -o solve_LSAP.o
g++ -std=gnu++17 -I"/home/rapidbuild/bbs-3.22-bioc-rapid/R/include" -DNDEBUG  -I'/media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library/cpp11/include' -I'/media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library/BH/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c unlockNamespace.cpp -o unlockNamespace.o
g++ -std=gnu++17 -shared -L/usr/local/lib -o openCyto.so Cdqrls.o Hungarian.o cpp11.o lm_wfit.o misc.o rlm.o solve_LSAP.o unlockNamespace.o
installing to /media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library/00LOCK-openCyto/00new/openCyto/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 (openCyto)