* installing *source* package ‘marked’ ...
** package ‘marked’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
using Fortran compiler: ‘GNU Fortran (GCC) 12.2.0’
using C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
using SDK: ‘MacOSX11.3.sdk’
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/Rcpp/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c bayesCR.cpp -o bayesCR.o
gfortran -arch x86_64 -fPIC -Wall -g -O2 -c cjs.f -o cjs.o
gfortran -arch x86_64 -fPIC -Wall -g -O2 -c cjs1tldmat.f -o cjs1tldmat.o
gfortran -arch x86_64 -fPIC -Wall -g -O2 -c cjs1tlgam.f -o cjs1tlgam.o
gfortran -arch x86_64 -fPIC -Wall -g -O2 -c cjs2tldmat.f -o cjs2tldmat.o
gfortran -arch x86_64 -fPIC -Wall -g -O2 -c cjs2tlgam.f -o cjs2tlgam.o
cjs.f:9:25:
9 | DOUBLE PRECISION X,Y
| 1
Warning: Unused variable ‘x’ declared at (1) [-Wunused-variable]
cjs.f:9:27:
9 | DOUBLE PRECISION X,Y
| 1
Warning: Unused variable ‘y’ declared at (1) [-Wunused-variable]
gfortran -arch x86_64 -fPIC -Wall -g -O2 -c cjsdmat.f -o cjsdmat.o
gfortran -arch x86_64 -fPIC -Wall -g -O2 -c cjsgamma.f -o cjsgamma.o
gfortran -arch x86_64 -fPIC -Wall -g -O2 -c hmm_like.f -o hmm_like.o
clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/Rcpp/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c init.c -o init.o
gfortran -arch x86_64 -fPIC -Wall -g -O2 -c ms2gamma.f -o ms2gamma.o
gfortran -arch x86_64 -fPIC -Wall -g -O2 -c msdmat.f -o msdmat.o
gfortran -arch x86_64 -fPIC -Wall -g -O2 -c msgamma.f -o msgamma.o
gfortran -arch x86_64 -fPIC -Wall -g -O2 -c mvmsdmat.f -o mvmsdmat.o
mvmsdmat.f:1:55:
1 | SUBROUTINE MVMSP(P,DELTA,N,M,F,T,NP,NOBS,PCOUNTS,INDICES,
| 1
Warning: Unused dummy argument ‘pcounts’ at (1) [-Wunused-dummy-argument]
gfortran -arch x86_64 -fPIC -Wall -g -O2 -c ums2dmat.f -o ums2dmat.o
gfortran -arch x86_64 -fPIC -Wall -g -O2 -c umsdmat.f -o umsdmat.o
clang++ -arch x86_64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/x86_64/lib -o marked.so bayesCR.o cjs.o cjs1tldmat.o cjs1tlgam.o cjs2tldmat.o cjs2tlgam.o cjsdmat.o cjsgamma.o hmm_like.o init.o ms2gamma.o msdmat.o msgamma.o mvmsdmat.o ums2dmat.o umsdmat.o -L/opt/gfortran/lib/gcc/x86_64-apple-darwin20.0/12.2.0 -L/opt/gfortran/lib -lgfortran -lquadmath -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Volumes/Builds/packages/big-sur-x86_64/results/4.3/marked.Rcheck/00LOCK-marked/00new/marked/libs
** generating debug symbols (dSYM)
** R
** data
** demo
** inst
** byte-compile and prepare package for lazy loading
Warning in checkMatrixPackageVersion() :
Package version inconsistency detected.
TMB was built with Matrix version 1.6.0
Current Matrix version is 1.6.1.1
Please re-install 'TMB' from source using install.packages('TMB', type = 'source') or ask CRAN for a binary version of 'TMB' matching CRAN's 'Matrix' package
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
Warning in checkMatrixPackageVersion() :
Package version inconsistency detected.
TMB was built with Matrix version 1.6.0
Current Matrix version is 1.6.1.1
Please re-install 'TMB' from source using install.packages('TMB', type = 'source') or ask CRAN for a binary version of 'TMB' matching CRAN's 'Matrix' package
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
Warning in checkMatrixPackageVersion() :
Package version inconsistency detected.
TMB was built with Matrix version 1.6.0
Current Matrix version is 1.6.1.1
Please re-install 'TMB' from source using install.packages('TMB', type = 'source') or ask CRAN for a binary version of 'TMB' matching CRAN's 'Matrix' package
** testing if installed package keeps a record of temporary installation path
* DONE (marked)