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This page was generated on 2021-10-15 15:06:53 -0400 (Fri, 15 Oct 2021).

BUILD BIN results for slalom on machv2

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- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/slalom.git to
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raw results

Package 1787/2041HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
slalom 1.14.0  (landing page)
Davis McCarthy
Snapshot Date: 2021-10-14 04:50:12 -0400 (Thu, 14 Oct 2021)
git_url: https://git.bioconductor.org/packages/slalom
git_branch: RELEASE_3_13
git_last_commit: 926621e
git_last_commit_date: 2021-05-19 12:31:02 -0400 (Wed, 19 May 2021)
nebbiolo1Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: slalom
Version: 1.14.0
Command: rm -rf slalom.buildbin-libdir && mkdir slalom.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh slalom_1.14.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R slalom.buildbin-libdir
StartedAt: 2021-10-15 04:02:17 -0400 (Fri, 15 Oct 2021)
EndedAt: 2021-10-15 04:03:30 -0400 (Fri, 15 Oct 2021)
EllapsedTime: 72.7 seconds
RetCode: 0
Status:   OK  
PackageFile: slalom_1.14.0.tgz
PackageFileSize: 20.01 MiB

Command output

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###
### Running command:
###
###   rm -rf slalom.buildbin-libdir && mkdir slalom.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh slalom_1.14.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R slalom.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=slalom.buildbin-libdir slalom_1.14.0.tar.gz'
>>>>>>> 

* installing *source* package ‘slalom’ ...
** using staged installation
** libs
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/BH/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c RcppExports.cpp -o RcppExports.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/BH/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c slalom-classes.cpp -o slalom-classes.o
slalom-classes.cpp:223:20: warning: unused variable 'meanerr' [-Wunused-variable]
            double meanerr = arma::mean(error);
                   ^
slalom-classes.cpp:202:12: warning: unused variable 'meanerr' [-Wunused-variable]
    double meanerr = arma::mean(error);
           ^
2 warnings generated.
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o slalom.so RcppExports.o slalom-classes.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.13-bioc/meat/slalom.buildbin-libdir/00LOCK-slalom/00new/slalom/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** 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 (slalom)


>>>>>>> 
>>>>>>> FIXING LINKS FOR slalom.buildbin-libdir/slalom/libs/slalom.so
>>>>>>> 

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/4.1/Resources/lib/libgcc_s.1.dylib" "slalom.buildbin-libdir/slalom/libs/slalom.so"
install_name_tool -change "/usr/local/lib/libgfortran.5.dylib" "/Library/Frameworks/R.framework/Versions/4.1/Resources/lib/libgfortran.5.dylib" "slalom.buildbin-libdir/slalom/libs/slalom.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.1/Resources/lib/libquadmath.0.dylib" "slalom.buildbin-libdir/slalom/libs/slalom.so"
install_name_tool -change "/usr/local/gfortran/lib/libgfortran.5.dylib" "/Library/Frameworks/R.framework/Versions/4.1/Resources/lib/libgfortran.5.dylib" "slalom.buildbin-libdir/slalom/libs/slalom.so"
install_name_tool -change "/usr/local/gfortran/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.1/Resources/lib/libquadmath.0.dylib" "slalom.buildbin-libdir/slalom/libs/slalom.so"