Back to Build/check report for BioC 3.13 on Apple's new arm64 arch |
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This page was generated on 2021-01-31 03:53:37 -0500 (Sun, 31 Jan 2021).
These are experimental builds on Apple's new arm64 arch. See here for more information. |
To the developers/maintainers of the scde package: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 1607/1938 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
scde 2.19.0 Jean Fan
| taxco | macOS 11.0.1 Big Sur / arm64 | OK | NA | NA | |||||||||
Package: scde |
Version: 2.19.0 |
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL scde |
StartedAt: 2021-01-30 16:27:03 -0500 (Sat, 30 Jan 2021) |
EndedAt: 2021-01-30 16:28:46 -0500 (Sat, 30 Jan 2021) |
EllapsedTime: 102.2 seconds |
RetCode: 0 |
Status: OK |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL scde ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/library’ * installing *source* package ‘scde’ ... ** using staged installation ** libs clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/library/RcppArmadillo/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c bwpca.cpp -o bwpca.o In file included from bwpca.cpp:1: In file included from ./bwpca.h:4: In file included from /Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/library/RcppArmadillo/include/RcppArmadillo.h:34: In file included from /Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/library/Rcpp/include/Rcpp.h:57: /Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/library/Rcpp/include/Rcpp/DataFrame.h:136:18: warning: unused variable 'data' [-Wunused-variable] SEXP data = Parent::get__(); ^ bwpca.cpp:105:11: warning: explicitly assigning value of variable of type 'arma::mat' (aka 'Mat<double>') to itself [-Wself-assign-overloaded] totvm %=totvm; ~~~~~ ^ ~~~~~ bwpca.cpp:122:15: warning: explicitly assigning value of variable of type 'arma::mat' (aka 'Mat<double>') to itself [-Wself-assign-overloaded] delta %=delta; ~~~~~ ^ ~~~~~ bwpca.cpp:147:19: warning: explicitly assigning value of variable of type 'arma::mat' (aka 'Mat<double>') to itself [-Wself-assign-overloaded] delta %=delta; ~~~~~ ^ ~~~~~ bwpca.cpp:271:19: warning: explicitly assigning value of variable of type 'arma::mat' (aka 'Mat<double>') to itself [-Wself-assign-overloaded] delta %=delta; ~~~~~ ^ ~~~~~ 5 warnings generated. clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/library/RcppArmadillo/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c jpmatLogBoot.cpp -o jpmatLogBoot.o In file included from jpmatLogBoot.cpp:1: In file included from ./jpmatLogBoot.h:4: In file included from /Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/library/RcppArmadillo/include/RcppArmadillo.h:34: In file included from /Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/library/Rcpp/include/Rcpp.h:57: /Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/library/Rcpp/include/Rcpp/DataFrame.h:136:18: warning: unused variable 'data' [-Wunused-variable] SEXP data = Parent::get__(); ^ jpmatLogBoot.cpp:200:24: warning: unused variable 'maxv' [-Wunused-variable] double maxv=nbp.max(maxij); ^ jpmatLogBoot.cpp:443:10: warning: unused variable 'maxv' [-Wunused-variable] double maxv=nbp.max(maxij); ^ 3 warnings generated. clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/library/RcppArmadillo/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c matSlideMult.cpp -o matSlideMult.o In file included from matSlideMult.cpp:1: In file included from ./matSlideMult.h:4: In file included from /Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/library/RcppArmadillo/include/RcppArmadillo.h:34: In file included from /Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/library/Rcpp/include/Rcpp.h:57: /Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/library/Rcpp/include/Rcpp/DataFrame.h:136:18: warning: unused variable 'data' [-Wunused-variable] SEXP data = Parent::get__(); ^ 1 warning generated. clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/library/RcppArmadillo/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c pagoda.cpp -o pagoda.o In file included from pagoda.cpp:1: In file included from ./pagoda.h:4: In file included from /Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/library/RcppArmadillo/include/RcppArmadillo.h:34: In file included from /Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/library/Rcpp/include/Rcpp.h:57: /Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/library/Rcpp/include/Rcpp/DataFrame.h:136:18: warning: unused variable 'data' [-Wunused-variable] SEXP data = Parent::get__(); ^ pagoda.cpp:56:15: warning: explicitly assigning value of variable of type 'arma::colvec' (aka 'Col<double>') to itself [-Wself-assign-overloaded] ic%=ic; jc%=jc; ~~^ ~~ pagoda.cpp:56:23: warning: explicitly assigning value of variable of type 'arma::colvec' (aka 'Col<double>') to itself [-Wself-assign-overloaded] ic%=ic; jc%=jc; ~~^ ~~ 3 warnings generated. clang++ -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o scde.so bwpca.o jpmatLogBoot.o matSlideMult.o pagoda.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/opt/R/arm64/gfortran/lib/gcc/aarch64-apple-darwin20.2.0/11.0.0 -L/opt/R/arm64/gfortran/lib -lgfortran -lemutls_w -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation installing to /Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/library/00LOCK-scde/00new/scde/libs ** R ** data *** moving datasets to lazyload DB ** 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 (scde)