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BioC 3.2: BUILD BIN report for AnalysisPageServer on perceval

This page was generated on 2015-10-27 17:36:56 -0400 (Tue, 27 Oct 2015).

Package 40/1104HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
AnalysisPageServer 1.4.0
Brad Friedman
Snapshot Date: 2015-10-26 19:24:07 -0400 (Mon, 26 Oct 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_2/madman/Rpacks/AnalysisPageServer
Last Changed Rev: 109589 / Revision: 109947
Last Changed Date: 2015-10-13 15:36:05 -0400 (Tue, 13 Oct 2015)
linux1.bioconductor.org Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK  WARNINGS UNNEEDED, same version exists in internal repository
windows1.bioconductor.org Windows Server 2012 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  OK  WARNINGS [ OK ]UNNEEDED, same version exists in internal repository
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository

Summary

Package: AnalysisPageServer
Version: 1.4.0
Command: rm -rf AnalysisPageServer.buildbin-libdir && mkdir AnalysisPageServer.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh AnalysisPageServer_1.4.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R AnalysisPageServer.buildbin-libdir
StartedAt: 2015-10-27 10:49:01 -0400 (Tue, 27 Oct 2015)
EndedAt: 2015-10-27 10:49:25 -0400 (Tue, 27 Oct 2015)
EllapsedTime: 23.9 seconds
RetCode: 0
Status:  OK 
PackageFile: AnalysisPageServer_1.4.0.tgz
PackageFileSize: 19.03 MiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf AnalysisPageServer.buildbin-libdir && mkdir AnalysisPageServer.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh AnalysisPageServer_1.4.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R AnalysisPageServer.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=AnalysisPageServer.buildbin-libdir AnalysisPageServer_1.4.0.tar.gz'
>>>>>>> 

* installing *source* package ‘AnalysisPageServer’ ...
rm *.o *.so
rm: *.o: No such file or directory
rm: *.so: No such file or directory
make: *** [clean] Error 1
** libs
** arch - 
R CMD SHLIB AnalysisPageSVG.cpp tinyxml2.cpp cor.cpp catch.c SearchReplace2.cpp R_init_AnalysisPageServer.cpp -o AnalysisPageServer.so
llvm-g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -Wall  -c AnalysisPageSVG.cpp -o AnalysisPageSVG.o
AnalysisPageSVG.cpp: In function ‘int matchPlotPoints(XMLElementList, std::deque<double, std::allocator<double> >, std::deque<double, std::allocator<double> >, double, int, int)’:
AnalysisPageSVG.cpp:154: warning: comparison between signed and unsigned integer expressions
AnalysisPageSVG.cpp:157: warning: comparison between signed and unsigned integer expressions
AnalysisPageSVG.cpp:194: warning: comparison between signed and unsigned integer expressions
AnalysisPageSVG.cpp:210: warning: comparison between signed and unsigned integer expressions
AnalysisPageSVG.cpp:215: warning: comparison between signed and unsigned integer expressions
llvm-g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -Wall  -c tinyxml2.cpp -o tinyxml2.o
llvm-g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -Wall  -c cor.cpp -o cor.o
cor.cpp: In function ‘double basic_cor(const std::deque<double, std::allocator<double> >&, const std::deque<double, std::allocator<double> >&)’:
cor.cpp:24: warning: comparison between signed and unsigned integer expressions
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -Wall  -c catch.c -o catch.o
llvm-g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -Wall  -c SearchReplace2.cpp -o SearchReplace2.o
llvm-g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -Wall  -c R_init_AnalysisPageServer.cpp -o R_init_AnalysisPageServer.o
llvm-g++-4.2 -arch x86_64 -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 -L/usr/local/lib -o AnalysisPageServer.so AnalysisPageSVG.o tinyxml2.o cor.o catch.o SearchReplace2.o R_init_AnalysisPageServer.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.2-bioc/meat/AnalysisPageServer.buildbin-libdir/AnalysisPageServer/libs
** R
** inst
** preparing package for lazy loading
While loading AnalysisPageServer: urlEncode not found, providing a pure R implementation
While loading AnalysisPageServer: urlDecode not found, providing a pure R implementation
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (AnalysisPageServer)


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

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libgcc_s.1.dylib" "AnalysisPageServer.buildbin-libdir/AnalysisPageServer/libs//AnalysisPageServer.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libgfortran.2.dylib" "AnalysisPageServer.buildbin-libdir/AnalysisPageServer/libs//AnalysisPageServer.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libreadline.5.2.dylib" "AnalysisPageServer.buildbin-libdir/AnalysisPageServer/libs//AnalysisPageServer.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libreadline.dylib" "AnalysisPageServer.buildbin-libdir/AnalysisPageServer/libs//AnalysisPageServer.so"