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BioC 3.2: BUILD BIN report for dexus on oaxaca

This page was generated on 2016-04-23 10:26:33 -0700 (Sat, 23 Apr 2016).

Package 272/1103HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
dexus 1.10.0
Guenter Klambauer
Snapshot Date: 2016-04-22 16:20:12 -0700 (Fri, 22 Apr 2016)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_2/madman/Rpacks/dexus
Last Changed Rev: 109589 / Revision: 116712
Last Changed Date: 2015-10-13 12:36:05 -0700 (Tue, 13 Oct 2015)
zin1 Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
moscato1 Windows Server 2008 R2 Standard (64-bit) / x64  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 ]UNNEEDED, same version exists in internal repository

Summary

Package: dexus
Version: 1.10.0
Command: rm -rf dexus.buildbin-libdir && mkdir dexus.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh dexus_1.10.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R dexus.buildbin-libdir
StartedAt: 2016-04-23 05:37:36 -0700 (Sat, 23 Apr 2016)
EndedAt: 2016-04-23 05:37:40 -0700 (Sat, 23 Apr 2016)
EllapsedTime: 4.0 seconds
RetCode: 0
Status:  OK 
PackageFile: dexus_1.10.0.tgz
PackageFileSize: 3.267 MiB

Command output

##############################################################################
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###
### Running command:
###
###   rm -rf dexus.buildbin-libdir && mkdir dexus.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh dexus_1.10.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R dexus.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=dexus.buildbin-libdir dexus_1.10.0.tar.gz'
>>>>>>> 

* installing *source* package ‘dexus’ ...
** libs
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -c dexus.cpp -o dexus.o
dexus.cpp:136:15: warning: equality comparison with extraneous parentheses [-Wparentheses-equality]
        if ((innerCyc==maxInnerCyc))
             ˜˜˜˜˜˜˜˜^˜˜˜˜˜˜˜˜˜˜˜˜
dexus.cpp:136:15: note: remove extraneous parentheses around the comparison to silence this warning
        if ((innerCyc==maxInnerCyc))
            ˜        ^            ˜
dexus.cpp:136:15: note: use '=' to turn this equality comparison into an assignment
        if ((innerCyc==maxInnerCyc))
                     ^˜
                     =
dexus.cpp:193:15: warning: unused variable 'DEFAULT_R' [-Wunused-variable]
        const double DEFAULT_R = 20; // R value used when re-setting clusters
                     ^
dexus.cpp:575:15: warning: unused variable 'DEFAULT_R' [-Wunused-variable]
        const double DEFAULT_R = 20; // R value used when re-setting clusters
                     ^
3 warnings generated.
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 dexus.so dexus.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.2-bioc/meat/dexus.buildbin-libdir/dexus/libs
** R
** data
** inst
** preparing package for lazy loading
Creating a generic function for ‘plot’ from package ‘graphics’ in package ‘dexus’
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (dexus)


>>>>>>> 
>>>>>>> FIXING LINKS FOR dexus.buildbin-libdir/dexus/libs//dexus.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" "dexus.buildbin-libdir/dexus/libs//dexus.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libgfortran.3.dylib" "dexus.buildbin-libdir/dexus/libs//dexus.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" "dexus.buildbin-libdir/dexus/libs//dexus.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libreadline.dylib" "dexus.buildbin-libdir/dexus/libs//dexus.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libquadmath.0.dylib" "dexus.buildbin-libdir/dexus/libs//dexus.so"