Install log for 'SAM'

* installing *source* package ‘SAM’ ...
** this is package ‘SAM’ version ‘1.2’
** package ‘SAM’ successfully unpacked and MD5 sums checked
** using staged installation
checking whether OpenMP will work in a package... no
configure: creating ./config.status
config.status: creating src/Makevars
** libs
using C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
using SDK: ‘MacOSX11.3.1.sdk’
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c amalgamation.cpp -o amalgamation.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c c_api.cpp -o c_api.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c utils.cpp -o utils.o
In file included from c_api.cpp:1:
In file included from ./c_api/grplasso.cpp:10:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include/Rcpp.h:27:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include/RcppCommon.h:29:
/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include/Rcpp/r/check_r_headers.h:27:13: warning: R.h has been included before any Rcpp headers. This can lead to hard-to-debug errors, and is not necessary. See https://github.com/RcppCore/Rcpp/issues/1410 [-W#pragma-messages]
    #pragma message "R.h has been included before any Rcpp headers. This can lead to hard-to-debug errors, and is not necessary. See https://github.com/RcppCore/Rcpp/issues/1410"
            ^
In file included from In file included from amalgamation.cpp:2:
In file included from ./objective/GLMObjective.cppc_api.cpp:In file included from 1utils.cpp:::
In file included from ./objective/GLMObjective.h:4:
In file included from 1:
In file included from ./c_api/grplasso.cpp./objective/objective.h:1:
:In file included from ./utils.h:5116:
:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/RcppEigen.hIn file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:25:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:29:
:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/Eigen/Sparse:26:
:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/Eigen/SparseCoreIn file included from In file included from :/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/Eigen/Sparse:26:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/Eigen/SparseCore:61:
61:
/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:29:
In file included from :13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
warning:       Index count = 0;/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/Eigen/Sparsevariable 'count' set but not used [-Wunused-but-set-variable]

            ^
      Index count = 0;
            ^
:26:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/Eigen/SparseCore:61:
/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
      Index count = 0;
            ^
In file included from utils.cpp:1:
In file included from ./utils.h:5:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/Eigen/Sparse:29:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/Eigen/SparseLU:35:
/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
  Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree 
        ^
/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
  Index nsuper_et = 0; // Number of relaxed snodes in the original etree 
        ^
In file included from c_api.cpp:1:
In file included from ./c_api/grplasso.cpp:11:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/Eigen/Sparse:29:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/Eigen/SparseLU:35:
/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.hIn file included from amalgamation.cpp:2:
In file included from ./objective/GLMObjective.cpp:1:
In file included from ./objective/GLMObjective.h:4:
In file included from ./objective/objective.h::78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
6  Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree 
        ^
:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
  Index nsuper_et = 0; // Number of relaxed snodes in the original etree 
        ^
/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/Eigen/Sparse:29:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/Eigen/SparseLU:35:
/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
  Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree 
        ^
/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
  Index nsuper_et = 0; // Number of relaxed snodes in the original etree 
        ^
In file included from amalgamation.cpp:2:
In file included from ./objective/GLMObjective.cpp:1:
In file included from ./objective/GLMObjective.h:4:
In file included from ./objective/objective.h:6:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:In file included from c_api.cpp:1utils.cpp:1:
31:
In file included from :
In file included from ./utils.h/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:In file included from ./c_api/grplasso.cpp::115:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:31:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/IterativeSolvers::
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/RcppEigen.h:2572:10:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:4631:
: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:
                        Index replacements = 0;:72In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h
                              ^
:72::10:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
                        Index replacements = 0;
                              ^
 warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
                        Index replacements = 0;
                              ^
In file included from c_api.cpp:1:
In file included from ./c_api/grplasso.cpp:11:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:37:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  int count = 0;
      ^
In file included from amalgamation.cpp:2:
In file included from ./objective/GLMObjective.cpp:1:
In file included from ./objective/GLMObjective.h:4:
In file included from In file included from utils.cpp:1:
In file included from ./objective/objective.h:./utils.h:5:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
6:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:37:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/RcppEigenForward.h:37:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
:246:7: warning:   int count = 0;
      ^
variable 'count' set but not used [-Wunused-but-set-variable]
  int count = 0;
      ^
5 warnings generated.
6 warnings generated.
5 warnings generated.
clang++ -arch arm64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o SAM.so amalgamation.o c_api.o utils.o -F/Library/Frameworks/R.framework/.. -framework R
installing to /Volumes/Builds/packages/big-sur-arm64/results/4.5/SAM.Rcheck/00LOCK-SAM/00new/SAM/libs
** generating debug symbols (dSYM)
** 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
** 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 (SAM)