* installing *source* package ‘pagoda2’ ...
** this is package ‘pagoda2’ version ‘1.0.15’
** package ‘pagoda2’ 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'/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'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I/opt/R/arm64/include -I"./include" -fPIC -falign-functions=64 -Wall -g -O2 -c RcppExports.cpp -o RcppExports.o
clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -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'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I/opt/R/arm64/include -I"./include" -fPIC -falign-functions=64 -Wall -g -O2 -c binaryExport.cpp -o binaryExport.o
clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -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'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I/opt/R/arm64/include -I"./include" -fPIC -falign-functions=64 -Wall -g -O2 -c checkfunctions.cpp -o checkfunctions.o
clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -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'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I/opt/R/arm64/include -I"./include" -fPIC -falign-functions=64 -Wall -g -O2 -c edgeweights.cpp -o edgeweights.o
clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -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'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I/opt/R/arm64/include -I"./include" -fPIC -falign-functions=64 -Wall -g -O2 -c gradients.cpp -o gradients.o
clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -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'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I/opt/R/arm64/include -I"./include" -fPIC -falign-functions=64 -Wall -g -O2 -c largeVis.cpp -o largeVis.o
In file included from RcppExports.cpp:5:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/Sparse:26:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/SparseCore:61:
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
273 | Index count = 0;
| ^
In file included from gradients.cpp:3In file included from edgeweights.cpp:9:
In file included from In file included from ./include/largeVis.h:
In file included from ./include/largeVis.h:9:
checkfunctions.cpp:9:
In file included from In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigen.h:25:
:In file included from 2:
In file included from largeVis.cpp:/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigenForward.hIn file included from :/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigen.h4:
In file included from :25:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigenForward.h:./include/largeVis.h./include/largeVis.h2929:
:
In file included from ::9:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigen.h9:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigenForward.h:29/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/Sparse:26:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/SparseCore:61:
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h::
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/Sparse273:13:26:
:25:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigenForward.h:In file included from : warning: variable 'count' set but not used [-Wunused-but-set-variable]
29In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/Sparse:26:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/SparseCore:61:
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/SparseCore 273 | : 61273 | I:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/Sparse:26:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/SparseCore:61:
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13::
ndex c/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h warning: variable 'count' set but not used [-Wunused-but-set-variable]
: 273 | 273:13ount Index : warning: variable 'count' set but not used [-Wunused-but-set-variable]
Incdount = 0;
| ^
273 | Iex count = 0;
| ^
ndex coun = 0;
| ^
t = 0;
| ^
In file included from In file included from In file included from RcppExports.cppcheckfunctions.cpp:2In file included from gradients.cpp:largeVis.cpp:5:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigen.h:4:
In file included from ./include/largeVis.h:In file included from :
edgeweights.cpp39::
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/Sparse:25In file included from ./include/largeVis.h:
:In file included from 29:
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigenForward.h9:9:
:
In file included from ./include/largeVis.hIn file included from :::
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/SparseLU:35:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: 9:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigen.h:2529:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/Sparse:In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigen.h./include/largeVis.h:
In file included from 29:/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/Sparse:29:25:
warning: :
In file included from In file included from :
In file included from 9/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/SparseLU:35:
:
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/SparseLU/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigenForward.h:29:
In file included from :78In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigenForward.h:29:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/Sparse:29:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/SparseLU:35/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/Sparse:
:29:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/SparseLU:35:
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.hvariable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:35:
:78:/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/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]
78 | :9: warning: 78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
| Index nsupvariable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
78 | Ie 78 | rn I 9n_Iddex nsupere:tn_ warning: e_ex variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]nsupt_post = 0;er_et
p/d_ 78 | / Nupoost m Indebe x nsuper_eser t_post = oxf0; // Num=t = 0; // Number of ber of rrelaxensuper d selaxeer_en0otlad_dxed snodes;es post = 0 snodes i; / //in postorderen pos/t Number d oo erderftree in postor
edrel d Neredeaumber ofxedt| etree r snodes ^
ie
r | ^
e/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:n79l:9:/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.ha :pos79:9xt:e warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
e ordd snodes in posto warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
r
| dere ^d79 | I79enr
ed | In/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
dd ex nee s79uper_etext | r = 0; / tree
| ^
/ nsuper_et = /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9:0; //N Numbum er of relaIber of r ee
| ^
e/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.hxnldex nsuper_ewarning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
: 79 | Index nsuper_et = 0; // Number of relaxed snodaxed snodes 79et = 0; ed snodes i/in/ Nsu :n the im orbe9iginal: rthe onwarning: original f relaxed snodes itnevariable 'nsuper_et' set but not used [-Wunused-but-set-variable]tree
he | ^
79 | Index nsuper_et = 0; // thoetree
| ^
re original etiginal etreree
e
| Number of relax | ^
^
ed snodes in the original etree
| ^
In file included from checkfunctions.cpp:2:
In file included from In file included from In file included from ./include/largeVis.hIn file included from :largeVis.cpp9In file included from RcppExports.cpp:5:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigenForward.h:gradients.cpp:3:
In file included from ./include/largeVis.h:9edgeweights.cpp31:
:In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigenForward.h:319:
In file included from ./include/largeVis.h:9:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigen.h:
:4In file included from ::
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:1025:
:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigenForward.h:31:
In file included from : warning: In file included from In file included from ./include/largeVis.h:
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigen.h:25/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/unsupported/Eigen/IterativeSolvers:9:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigen.hIn file included from :
variable 'replacements' set but not used [-Wunused-but-set-variable]:In file included from
:25/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/unsupported/Eigen/IterativeSolvers:/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigenForward.h46:
:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigenForward.h:31 72 | /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:
:3146::
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.hIn file included from :72:72 Index:10 rep10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
72/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/unsupported/Eigen/IterativeSolvers:
In file included from | /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/unsupported/Eigen/IterativeSolversl: warning: :46:
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: :aIcvariable 'replacements' set but not used [-Wunused-but-set-variable]variable 'replacements' set but not used [-Wunused-but-set-variable]
n46:
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:ed
men 72 | 7210t: warning: s | = ex replacements = Index repla Index rvariable 'replacements' set but not used [-Wunused-but-set-variable]c
epl 0acements = 0;
| ^
e72 | Index0 rep;
| ^
ment;
| ^
lacements = 0s = 0;
| ^
;
| ^
In file included from In file included from gradients.cpp:3:
In file included from edgeweights.cpp:9:
In file included from ./include/largeVis.h:9In file included from ./include/largeVis.h:9:
In file included from largeVis.cpp:In file included from 4/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigen.h:
RcppExports.cppIn file included from ./include/largeVis.h:9:
:
In file included from In file included from :5:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigenForward.h:37:
:checkfunctions.cppIn file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:24625/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigenForward.h:37:
In file included from In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigenForward.h:37:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/unsupported/Eigen/SparseExtra:/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigenForward.h::
:45:
7In file included from :: warning: variable 'count' set but not used [-Wunused-but-set-variable]
246 | in/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: 2:
variable 'count' set but not used [-Wunused-but-set-variable]/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h37In file included from ./include/largeVis.h:t cou:246n:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
9:
:
246 | inIn file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigen.h:25t:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246=In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/RcppEigenForward.h:37:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7:t 2460:count = 7; | i0 ;warning:
: warning: variable 'count' set but not used [-Wunused-but-set-variable]
nt c | ^
| 246 | int c ^ou
ount =variable 'count' set but not used [-Wunused-but-set-variable]
246 | nt = 0;
| ^
int0;
| ^
count = 0;
| ^
edgeweights.cpp:123:12: warning: variable 'sum_weight' set but not used [-Wunused-but-set-variable]
123 | double sum_weight = 0;
| ^
clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -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'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I/opt/R/arm64/include -I"./include" -fPIC -falign-functions=64 -Wall -g -O2 -c misc2.cpp -o misc2.o
5 warnings generated.
clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -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'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I/opt/R/arm64/include -I"./include" -fPIC -falign-functions=64 -Wall -g -O2 -c pagoda1_liftover.cpp -o pagoda1_liftover.o
5 warnings generated.
clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -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'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppEigen/include' -I/opt/R/arm64/include -I"./include" -fPIC -falign-functions=64 -Wall -g -O2 -c rank.cpp -o rank.o
6 warnings generated.
5 warnings generated.
5 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 pagoda2.so RcppExports.o binaryExport.o checkfunctions.o edgeweights.o gradients.o largeVis.o misc2.o pagoda1_liftover.o rank.o -L. -lpthread -lm -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/pagoda2.Rcheck/00LOCK-pagoda2/00new/pagoda2/libs
** generating debug symbols (dSYM)
** R
** 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 (pagoda2)