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BioC 3.5: BUILD BIN report for methylKit on oaxaca

This page was generated on 2017-03-04 16:52:50 -0500 (Sat, 04 Mar 2017).

Package 776/1339HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
methylKit 1.1.7
Altuna Akalin
Snapshot Date: 2017-03-03 17:15:47 -0500 (Fri, 03 Mar 2017)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/methylKit
Last Changed Rev: 126381 / Revision: 127142
Last Changed Date: 2017-02-01 07:31:02 -0500 (Wed, 01 Feb 2017)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository
toluca2 Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK [ OK ]

Summary

Package: methylKit
Version: 1.1.7
Command: rm -rf methylKit.buildbin-libdir && mkdir methylKit.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh methylKit_1.1.7.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R methylKit.buildbin-libdir
StartedAt: 2017-03-04 11:49:17 -0800 (Sat, 04 Mar 2017)
EndedAt: 2017-03-04 11:49:50 -0800 (Sat, 04 Mar 2017)
EllapsedTime: 33.5 seconds
RetCode: 0
Status:  OK 
PackageFile: methylKit_1.1.7.tgz
PackageFileSize: 2.059 MiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf methylKit.buildbin-libdir && mkdir methylKit.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh methylKit_1.1.7.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R methylKit.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=methylKit.buildbin-libdir methylKit_1.1.7.tar.gz'
>>>>>>> 

* installing *source* package ‘methylKit’ ...
** libs
clang++ -std=gnu++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.4/Resources/library/Rcpp/include" -I"/Library/Frameworks/R.framework/Versions/3.4/Resources/library/Rhtslib/include" -I"/Library/Frameworks/R.framework/Versions/3.4/Resources/library/zlibbioc/include" -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include   -fPIC  -Wall -mtune=core2 -g -O2 -c RcppExports.cpp -o RcppExports.o
clang++ -std=gnu++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.4/Resources/library/Rcpp/include" -I"/Library/Frameworks/R.framework/Versions/3.4/Resources/library/Rhtslib/include" -I"/Library/Frameworks/R.framework/Versions/3.4/Resources/library/zlibbioc/include" -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include   -fPIC  -Wall -mtune=core2 -g -O2 -c methCall.cpp -o methCall.o
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/usr/local/lib -o methylKit.so RcppExports.o methCall.o /Library/Frameworks/R.framework/Versions/3.4/Resources/library/Rhtslib/lib/libhts.a -lz -pthread -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
clang: warning: argument unused during compilation: '-pthread'
installing to /Users/biocbuild/bbs-3.5-bioc/meat/methylKit.buildbin-libdir/methylKit/libs
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (methylKit)


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

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libgcc_s.1.dylib" "methylKit.buildbin-libdir/methylKit/libs//methylKit.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libgfortran.3.dylib" "methylKit.buildbin-libdir/methylKit/libs//methylKit.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libreadline.5.2.dylib" "methylKit.buildbin-libdir/methylKit/libs//methylKit.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libreadline.dylib" "methylKit.buildbin-libdir/methylKit/libs//methylKit.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libquadmath.0.dylib" "methylKit.buildbin-libdir/methylKit/libs//methylKit.so"