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BUILD BIN report for immunoClust on merida2

This page was generated on 2018-10-17 08:54:23 -0400 (Wed, 17 Oct 2018).

Package 729/1561HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
immunoClust 1.12.0
Till Soerensen
Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018)
URL: https://git.bioconductor.org/packages/immunoClust
Branch: RELEASE_3_7
Last Commit: c0ecf5a
Last Changed Date: 2018-04-30 10:35:36 -0400 (Mon, 30 Apr 2018)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
merida2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK [ OK ]UNNEEDED, same version exists in internal repository

Summary

Package: immunoClust
Version: 1.12.0
Command: rm -rf immunoClust.buildbin-libdir && mkdir immunoClust.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh immunoClust_1.12.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R immunoClust.buildbin-libdir
StartedAt: 2018-10-17 01:31:47 -0400 (Wed, 17 Oct 2018)
EndedAt: 2018-10-17 01:32:47 -0400 (Wed, 17 Oct 2018)
EllapsedTime: 59.8 seconds
RetCode: 0
Status:  OK 
PackageFile: immunoClust_1.12.0.tgz
PackageFileSize: 3.746 MiB

Command output

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###
### Running command:
###
###   rm -rf immunoClust.buildbin-libdir && mkdir immunoClust.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh immunoClust_1.12.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R immunoClust.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=immunoClust.buildbin-libdir immunoClust_1.12.0.tar.gz'
>>>>>>> 

* installing *source* package ‘immunoClust’ ...
checking for pkg-config... /usr/local/bin/pkg-config
checking pkg-config is at least version 0.9.0... yes
checking for GSL... yes
configure: creating ./config.status
config.status: creating src/Makevars
** libs
clang++  -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c R_meta.cpp -o R_meta.o
clang++  -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c R_model.cpp -o R_model.o
clang++  -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c dist_mvn.cpp -o dist_mvn.o
clang++  -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c em_meta.cpp -o em_meta.o
clang++  -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c em_mvn.cpp -o em_mvn.o
em_mvn.cpp:595:18: warning: unused variable 'status' [-Wunused-variable]
        int i, k, p, q, status = 0;
                        ^
1 warning generated.
clang++  -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c em_mvt.cpp -o em_mvt.o
clang++  -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c hc_meta.cpp -o hc_meta.o
clang++  -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c hc_mvn.cpp -o hc_mvn.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c immunoClust.c -o immunoClust.o
clang++  -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c meta_gpa.cpp -o meta_gpa.o
clang++  -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c meta_norm.cpp -o meta_norm.o
clang++  -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c meta_scale.cpp -o meta_scale.o
clang++  -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c normalize.cpp -o normalize.o
clang++  -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c sub_mvn.cpp -o sub_mvn.o
In file included from sub_mvn.cpp:10:
./sub_mvn.h:21:16: warning: private field 'W' is not used [-Wunused-private-field]
        const double* W;
                      ^
1 warning generated.
clang++  -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c util.cpp -o util.o
clang++  -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c vs_htrans.cpp -o vs_htrans.o
clang++ -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 immunoClust.so R_meta.o R_model.o dist_mvn.o em_meta.o em_mvn.o em_mvt.o hc_meta.o hc_mvn.o immunoClust.o meta_gpa.o meta_norm.o meta_scale.o normalize.o sub_mvn.o util.o vs_htrans.o -L/usr/local/lib -lgsl -lgslcblas -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.7-bioc/meat/immunoClust.buildbin-libdir/immunoClust/libs
** R
** data
** 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
* DONE (immunoClust)


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

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libgcc_s.1.dylib" "immunoClust.buildbin-libdir/immunoClust/libs//immunoClust.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libgfortran.3.dylib" "immunoClust.buildbin-libdir/immunoClust/libs//immunoClust.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libreadline.5.2.dylib" "immunoClust.buildbin-libdir/immunoClust/libs//immunoClust.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libreadline.dylib" "immunoClust.buildbin-libdir/immunoClust/libs//immunoClust.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libquadmath.0.dylib" "immunoClust.buildbin-libdir/immunoClust/libs//immunoClust.so"