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BioC 3.4: BUILD BIN report for biovizBase on morelia

This page was generated on 2017-04-15 16:23:49 -0400 (Sat, 15 Apr 2017).

Package 131/1296HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biovizBase 1.22.0
Michael Lawrence
Snapshot Date: 2017-04-14 17:17:13 -0400 (Fri, 14 Apr 2017)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_4/madman/Rpacks/biovizBase
Last Changed Rev: 122710 / Revision: 128728
Last Changed Date: 2016-10-17 14:45:06 -0400 (Mon, 17 Oct 2016)
malbec1 Linux (Ubuntu 16.04.1 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay1 Windows Server 2012 R2 Standard / x64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
morelia Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  OK [ OK ]UNNEEDED, same version exists in internal repository

Summary

Package: biovizBase
Version: 1.22.0
Command: rm -rf biovizBase.buildbin-libdir && mkdir biovizBase.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh biovizBase_1.22.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R biovizBase.buildbin-libdir
StartedAt: 2017-04-15 09:42:00 -0700 (Sat, 15 Apr 2017)
EndedAt: 2017-04-15 09:42:26 -0700 (Sat, 15 Apr 2017)
EllapsedTime: 25.7 seconds
RetCode: 0
Status:  OK 
PackageFile: biovizBase_1.22.0.tgz
PackageFileSize: 2.415 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_1.22.0.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_1.22.0.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-3.4-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/3.3/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/3.3/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/3.3/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/3.3/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/3.3/Resources/lib/libquadmath.0.dylib" "biovizBase.buildbin-libdir/biovizBase/libs//biovizBase.so"