Install log for 'dmbc'

* installing *source* package ‘dmbc’ ...
** this is package ‘dmbc’ version ‘1.0.3’
** package ‘dmbc’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 17.0.0 (clang-1700.3.19.1)’
using SDK: ‘MacOSX14.5.sdk’
clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppProgress/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c distrib.cpp -o distrib.o
clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppProgress/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c dmbc.cpp -o dmbc.o
clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppProgress/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c init.cpp -o init.o
clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppProgress/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c matrix_utils.cpp -o matrix_utils.o
clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppProgress/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c mcmc.cpp -o mcmc.o
clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppProgress/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c relabel.cpp -o relabel.o
In file included from distrib.cpp:In file included from 3:
In file included from ../inst/include/dmbc.h:14relabel.cpp:3:
In file included from ../inst/include/dmbc.h:14:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo.h::
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo.h:32:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h32:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:26:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include/RcppCommon.h:29:
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include/Rcpp/r/check_r_headers.h:26:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include/RcppCommon.h:29:
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/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]
: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]
      27 |     #pragma mes27 |     #pragma messsage "R.h hasage "R.h has been been includ includeed before any Rcd before any Rcpp headers. This can pp headers. Tlead to hard-to-debuhis can lead to hag errors, and is nord-to-debug ert necessary. See https://githrors, and is not necub.com/Ressary. See https://github.com/RcppcppCore/Rcpp/Core/Rcpp/issuesissues/1410"
      /1410"
      |             ^
|             ^
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include/Rcpp/r/check_r_headers.h:35:13: warning: /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include/Rcpp/r/check_r_headers.h:35:13: warning: Rinternals.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]
Rinternals.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]
   35 |     #pragm   35 |     #pragma message a message "Rint"Rinternals.h has ernals.h has been included before abeen included beforny Rcpp headers. Thie any Rcs can lead to harpp headers. This cad-to-debug errors, and is not necen lead to harssary. Sed-to-debug errors, and is e https://github.cnot necessary. Seom/RcppCore/Rcpp/issues/1e https://github.com/RcppCore/Rcpp/issues/1410"
      |             ^
410"
      |             ^
In file included from dmbc.cpp:3:
In file included from ../inst/include/dmbc.h:14:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo.h:32:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:26:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include/RcppCommon.h:29:
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/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]
   27 |     #pragma message "R.h has been included before any Rcpp headers. This can lead to hard-to-debIn file included from mcmc.cpp:3:
In file included from ../inst/include/dmbc.h:14:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo.h:32:
In file included from In file included from init.cpp:5:
In file included from ../inst/include/dmbc.h:ug er/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:26:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include/RcppCommon.h14:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo.h:32:
In file included from r/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:26:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include/RcppCommon.h:29:
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include/Rcpp/r/check_r_headers.h::29:
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include/Rcpp/r/check_r_headers.ho27:13:rs, and is not: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]
warning:    27 |     #p neceR.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]
ragma   27 |   messassar   #pragma y. See htgetmessapsge "R.h has been incl "R://In file included from uded befor.matrix_utils.cpphe:3:
 has been included before any Rcpp headers. This can lIn file included from ../inst/include/dmbc.hgithub.com :14:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo.h:32:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:26:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include/RcppCommon.h:29:
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include/Rcpp/r/check_r_headers.h:27:/ead to hard-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]
ato-dn   RcppCe27o |     yre/Rcpp/issues/1410b Rcpp headers. #pragma "
      |             ^
ug err/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include/Rcpp/r/check_r_headers.hTomrs,:e35:13: warning: Rinternals.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]
h   35 |      #pragma message ssage "Ri"R.h has is nternals.h has bcan lead to haand is not necessary. See httrbeeneen d ps://iin-gnithub.com/RcppCtcco-dluolere/Rcpdupded before any Rb/ed befcissues/1410"
      |             ^
ugp/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include/Rcpp/r/check_r_headers.hore any Rcpp head: errors, ape35rs. Th:13: warning: Rinternals.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]
nd i   35 |    i  hea#pragma messss  acnot ngecaendsee rs. lead to h" RinsTthis can ard-ertaro-debug errors, andnalsl. eyh has be.a is ndot Sto hard-to-debug errors, and is eee no https://github.com/RcppCore/Rcpp/issues/tn1ne inc4cluded before any Rc10 essary. pneces"Spsary. See htt hps://github.cea
om/RcppCoreders. This c      e/e httap| s            ^
Rn lead t/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include/Rcpp/r/check_r_headers.h:/ocpp/ ha:isr/github.com/d35s:13Rc: warning: Rinternals.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]
-ppCoues/14   t135or | e    #p-debug0"/
       ra| Rcpp/issueserrors,             ^/a
1410"
      |             ^
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include/Rcpp/r/check_r_headers.h:35:13: warning: Rinternals.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]
gma message "   35 |     #pragma messaRinnge "Rinternals.h d is noternalhas been itncluded before a necessarsnyy. See h.h hast Rcpp  been included before headers. This tpcan leany Rcas:/pp headers. d/github.com/RcppCoThis can lreead to/Rcpp/issu to hard-to-des/ hard-to1410"
      |             ^
ebug errors, and is not necessary. See https://githu-debug errors, and is not necessary. See https://gitb.com/Rcphub.com/RcppCore/RcppCore/Rcpp/issup/issues/1410"
      |             ^
es/1410"
      |             ^
2 warnings generated.
2 warnings generated.
clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppProgress/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c utils.cpp -o utils.o
In file included from utils.cpp:3:
In file included from ../inst/include/dmbc.h:14:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo.h:32:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:26:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include/RcppCommon.h:29:
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/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]
   27 |     #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"
      |             ^
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include/Rcpp/r/check_r_headers.h:35:13: warning: Rinternals.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]
   35 |     #pragma message "Rinternals.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"
      |             ^
2 warnings generated.
2 warnings generated.
2 warnings generated.
2 warnings generated.
2 warnings generated.
clang++ -arch arm64 -std=gnu++20 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o dmbc.so distrib.o dmbc.o init.o matrix_utils.o mcmc.o relabel.o utils.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/14.2.0 -L/opt/gfortran/lib -lemutls_w -lheapt_w -lgfortran -lquadmath -F/Library/Frameworks/R.framework/.. -framework R
installing to /Volumes/Builds/packages/sonoma-arm64/results/4.6/dmbc.Rcheck/00LOCK-dmbc/00new/dmbc/libs
** generating debug symbols (dSYM)
** R
** data
*** moving datasets to lazyload DB
** demo
** inst
** 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 (dmbc)