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BioC 2.13: BUILD BIN report for MANOR on perceval

This page was generated on 2014-04-05 09:51:48 -0700 (Sat, 05 Apr 2014).

Package 415/750HostnameOS / ArchBUILDCHECKBUILD BIN
MANOR 1.34.0
Pierre Neuvial
Snapshot Date: 2014-04-04 16:20:29 -0700 (Fri, 04 Apr 2014)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_13/madman/Rpacks/MANOR
Last Changed Rev: 81642 / Revision: 88450
Last Changed Date: 2013-10-14 14:29:21 -0700 (Mon, 14 Oct 2013)
zin1 Linux (Ubuntu 12.04.4 LTS) / x86_64  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK [ OK ]

Summary

Package: MANOR
Version: 1.34.0
Command: rm -rf MANOR.buildbin-libdir && mkdir MANOR.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh MANOR_1.34.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R MANOR.buildbin-libdir
StartedAt: 2014-04-05 05:29:10 -0700 (Sat, 05 Apr 2014)
EndedAt: 2014-04-05 05:29:19 -0700 (Sat, 05 Apr 2014)
EllapsedTime: 9.3 seconds
RetCode: 0
Status:  OK 
PackageFile: MANOR_1.34.0.tgz
PackageFileSize: 982.7 KiB

Command output

>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=MANOR.buildbin-libdir MANOR_1.34.0.tar.gz'
>>>>>>> 

* installing *source* package ‘MANOR’ ...
** libs
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -Wall  -c Rnem_arg.c -o Rnem_arg.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -Wall  -c Rnem_exe.c -o Rnem_exe.o
Rnem_exe.c: In function ‘MakeErrinfo’:
Rnem_exe.c:216: warning: cast from pointer to integer of different size
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -Wall  -c exememo.c -o exememo.o
exememo.c: In function ‘GenAlloc’:
exememo.c:42: warning: passing argument 1 of ‘Rf_error’ makes pointer from integer without a cast
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -Wall  -c lib_io.c -o lib_io.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -Wall  -c nem_alg.c -o nem_alg.o
nem_alg.c:86:1: warning: "MAXFLOAT" redefined
In file included from /usr/include/math.h:28,
                 from nem_alg.c:73:
/usr/include/architecture/i386/math.h:545:1: warning: this is the location of the previous definition
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -Wall  -c nem_hlp.c -o nem_hlp.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -Wall  -c nem_mod.c -o nem_mod.o
nem_mod.c:52:1: warning: "MAXFLOAT" redefined
In file included from /usr/include/math.h:28,
                 from nem_mod.c:39:
/usr/include/architecture/i386/math.h:545:1: warning: this is the location of the previous definition
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -Wall  -c nem_nei.c -o nem_nei.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -Wall  -c nem_rnd.c -o nem_rnd.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -Wall  -c nem_ver.c -o nem_ver.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -L/usr/local/lib -o MANOR.so Rnem_arg.o Rnem_exe.o exememo.o lib_io.o nem_alg.o nem_hlp.o nem_mod.o nem_nei.o nem_rnd.o nem_ver.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.13-bioc/meat/MANOR.buildbin-libdir/MANOR/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 (MANOR)


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

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libgcc_s.1.dylib" "MANOR.buildbin-libdir/MANOR/libs//MANOR.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libgfortran.2.dylib" "MANOR.buildbin-libdir/MANOR/libs//MANOR.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libreadline.5.2.dylib" "MANOR.buildbin-libdir/MANOR/libs//MANOR.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libreadline.dylib" "MANOR.buildbin-libdir/MANOR/libs//MANOR.so"