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BioC 3.1: BUILD BIN report for EBImage on morelia

This page was generated on 2015-10-09 09:38:17 -0700 (Fri, 09 Oct 2015).

Package 285/1024HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
EBImage 4.10.1
Andrzej OleÅ›
Snapshot Date: 2015-10-08 17:20:21 -0700 (Thu, 08 Oct 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_1/madman/Rpacks/EBImage
Last Changed Rev: 105709 / Revision: 109384
Last Changed Date: 2015-07-01 01:46:04 -0700 (Wed, 01 Jul 2015)
zin2 Linux (Ubuntu 14.04.2 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
petty Mac OS X Snow Leopard (10.6.8) / x86_64  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: EBImage
Version: 4.10.1
Command: rm -rf EBImage.buildbin-libdir && mkdir EBImage.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh EBImage_4.10.1.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R EBImage.buildbin-libdir
StartedAt: 2015-10-09 07:41:33 -0700 (Fri, 09 Oct 2015)
EndedAt: 2015-10-09 07:41:43 -0700 (Fri, 09 Oct 2015)
EllapsedTime: 9.5 seconds
RetCode: 0
Status:  OK 
PackageFile: EBImage_4.10.1.tgz
PackageFileSize: 4.069 MiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf EBImage.buildbin-libdir && mkdir EBImage.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh EBImage_4.10.1.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R EBImage.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=EBImage.buildbin-libdir EBImage_4.10.1.tar.gz'
>>>>>>> 

* installing *source* package ‘EBImage’ ...
** 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 EBImage.c -o EBImage.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 distmap.c -o distmap.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 drawCircle.c -o drawCircle.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 floodFill.cpp -o floodFill.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 greyscale_morphology.c -o greyscale_morphology.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 haralick.c -o haralick.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 medianFilter.c -o medianFilter.o
medianFilter.c:463:45: warning: unused variable 'j' [-Wunused-variable]
  int nprotect = 0, x, y, z, r, memsize, i, j, imagesize, framesize;
                                            ^
1 warning generated.
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 morphology.c -o morphology.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 nativeRaster.c -o nativeRaster.o
nativeRaster.c:14:11: warning: unused variable 'in' [-Wunused-variable]
  double *in;
          ^
1 warning generated.
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 normalize.c -o normalize.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 objects.c -o objects.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 ocontour.c -o ocontour.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 propagate.cpp -o propagate.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 spatial.c -o spatial.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 thresh.c -o thresh.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 tile.c -o tile.o
tile.c:21:29: warning: unused variable 'ifg' [-Wunused-variable]
  int nprotect, nx, ny, nz, ifg, ibg, nxr, nyr, * iim, i, j, index, x, y;
                            ^
tile.c:21:34: warning: unused variable 'ibg' [-Wunused-variable]
  int nprotect, nx, ny, nz, ifg, ibg, nxr, nyr, * iim, i, j, index, x, y;
                                 ^
tile.c:142:37: warning: unused variable 'id' [-Wunused-variable]
  void *src, *tgt; double *dd; int *id;
                                    ^
3 warnings generated.
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 tools.c -o tools.o
tools.c:119:20: warning: unused variable 'colorMode' [-Wunused-variable]
  int width,height,colorMode,nbChannels;
                   ^
1 warning generated.
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 watershed.cpp -o watershed.o
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 EBImage.so EBImage.o distmap.o drawCircle.o floodFill.o greyscale_morphology.o haralick.o medianFilter.o morphology.o nativeRaster.o normalize.o objects.o ocontour.o propagate.o spatial.o thresh.o tile.o tools.o watershed.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.1-bioc/meat/EBImage.buildbin-libdir/EBImage/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (EBImage)


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