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BioC 3.0: BUILD BIN report for biovizBase on oaxaca

This page was generated on 2015-04-10 10:05:23 -0700 (Fri, 10 Apr 2015).

Package 103/933HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biovizBase 1.14.1
Tengfei Yin
Snapshot Date: 2015-04-09 16:20:12 -0700 (Thu, 09 Apr 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_0/madman/Rpacks/biovizBase
Last Changed Rev: 97603 / Revision: 102249
Last Changed Date: 2014-12-12 12:30:04 -0800 (Fri, 12 Dec 2014)
zin1 Linux (Ubuntu 12.04.4 LTS) / x86_64  OK  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK  OK 
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  OK  OK 
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  OK [ OK ]

Summary

Package: biovizBase
Version: 1.14.1
Command: rm -rf biovizBase.buildbin-libdir && mkdir biovizBase.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh biovizBase_1.14.1.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R biovizBase.buildbin-libdir
StartedAt: 2015-04-10 04:26:44 -0700 (Fri, 10 Apr 2015)
EndedAt: 2015-04-10 04:27:17 -0700 (Fri, 10 Apr 2015)
EllapsedTime: 32.2 seconds
RetCode: 0
Status:  OK 
PackageFile: biovizBase_1.14.1.tgz
PackageFileSize: 2.413 MiB

Command output

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###
### Running command:
###
###   rm -rf biovizBase.buildbin-libdir && mkdir biovizBase.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh biovizBase_1.14.1.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R biovizBase.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=biovizBase.buildbin-libdir biovizBase_1.14.1.tar.gz'
>>>>>>> 

* installing *source* package ‘biovizBase’ ...
** 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 R_init_biovizBase.c -o R_init_biovizBase.o
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 bin_offsets.c -o bin_offsets.o
bin_offsets.c:57:15: warning: passing 'Rbyte *' (aka 'unsigned char *') to parameter of type 'const char *' converts between pointers to integer types with different sign [-Wpointer-sign]
  if (strncmp(b, "BAI\1", 4))
              ^
/usr/include/string.h:84:26: note: passing argument to parameter here
int      strncmp(const char *, const char *, size_t);
                             ^
1 warning 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 biovizBase.so R_init_biovizBase.o bin_offsets.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.0-bioc/meat/biovizBase.buildbin-libdir/biovizBase/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 (biovizBase)


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

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.1/Resources/lib/libgcc_s.1.dylib" "biovizBase.buildbin-libdir/biovizBase/libs//biovizBase.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.1/Resources/lib/libgfortran.3.dylib" "biovizBase.buildbin-libdir/biovizBase/libs//biovizBase.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.1/Resources/lib/libreadline.5.2.dylib" "biovizBase.buildbin-libdir/biovizBase/libs//biovizBase.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.1/Resources/lib/libreadline.dylib" "biovizBase.buildbin-libdir/biovizBase/libs//biovizBase.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.1/Resources/lib/libquadmath.0.dylib" "biovizBase.buildbin-libdir/biovizBase/libs//biovizBase.so"