Back to the "Multiple platform build/check report" A  B  C [D] E  F  G  H  I  J  K  L  M  N  O  P  Q  R  S  T  U  V  W  X  Y  Z 

BioC 2.14: BUILD BIN report for DNAcopy on morelia

This page was generated on 2014-10-08 09:02:17 -0700 (Wed, 08 Oct 2014).

Package 232/824HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
DNAcopy 1.38.1
Venkatraman E. Seshan
Snapshot Date: 2014-10-07 17:20:37 -0700 (Tue, 07 Oct 2014)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_14/madman/Rpacks/DNAcopy
Last Changed Rev: 90176 / Revision: 95116
Last Changed Date: 2014-05-09 15:54:26 -0700 (Fri, 09 May 2014)
zin2 Linux (Ubuntu 12.04.4 LTS) / x86_64  OK  OK  OK 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK  OK 
petty Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  OK  OK 
morelia Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  OK [ OK ]

Summary

Package: DNAcopy
Version: 1.38.1
Command: rm -rf DNAcopy.buildbin-libdir && mkdir DNAcopy.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh DNAcopy_1.38.1.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R DNAcopy.buildbin-libdir
StartedAt: 2014-10-08 02:52:36 -0700 (Wed, 08 Oct 2014)
EndedAt: 2014-10-08 02:52:40 -0700 (Wed, 08 Oct 2014)
EllapsedTime: 4.8 seconds
RetCode: 0
Status:  OK 
PackageFile: DNAcopy_1.38.1.tgz
PackageFileSize: 374.5 KiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf DNAcopy.buildbin-libdir && mkdir DNAcopy.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh DNAcopy_1.38.1.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R DNAcopy.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=DNAcopy.buildbin-libdir DNAcopy_1.38.1.tar.gz'
>>>>>>> 

* installing *source* package ‘DNAcopy’ ...
** libs
gfortran-4.8   -fPIC  -g -O2 -Wall  -c cbsWtstats.f -o cbsWtstats.o
cbsWtstats.f: In function ‘wtmaxo’:
cbsWtstats.f:283:0: warning: ‘tmaxj’ may be used uninitialized in this function [-Wmaybe-uninitialized]
       iseg(2) = tmaxj
 ^
cbsWtstats.f:282:0: warning: ‘tmaxi’ may be used uninitialized in this function [-Wmaybe-uninitialized]
       iseg(1) = tmaxi
 ^
gfortran-4.8   -fPIC  -g -O2 -Wall  -c cbststats.f -o cbststats.o
cbststats.f: In function ‘tmaxo’:
cbststats.f:258:0: warning: ‘sxmxi’ may be used uninitialized in this function [-Wmaybe-uninitialized]
                      tmaxj = sxmxi + i2j
 ^
gfortran-4.8   -fPIC  -g -O2 -Wall  -c changepoints-wtd.f -o changepoints-wtd.o
gfortran-4.8   -fPIC  -g -O2 -Wall  -c changepoints.f -o changepoints.o
gfortran-4.8   -fPIC  -g -O2 -Wall  -c esegment.f -o esegment.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 flchoose.c -o flchoose.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 fphyper.c -o fphyper.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 fpnorm.c -o fpnorm.o
gfortran-4.8   -fPIC  -g -O2 -Wall  -c getbdry.f -o getbdry.o
gfortran-4.8   -fPIC  -g -O2 -Wall  -c prune.f -o prune.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 rshared.c -o rshared.o
gfortran-4.8   -fPIC  -g -O2 -Wall  -c segmentp.f -o segmentp.o
gfortran-4.8   -fPIC  -g -O2 -Wall  -c smoothCNA.f -o smoothCNA.o
gfortran-4.8   -fPIC  -g -O2 -Wall  -c tailprobs.f -o tailprobs.o
clang -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o DNAcopy.so cbsWtstats.o cbststats.o changepoints-wtd.o changepoints.o esegment.o flchoose.o fphyper.o fpnorm.o getbdry.o prune.o rshared.o segmentp.o smoothCNA.o tailprobs.o -L/usr/local/lib/gcc/x86_64-apple-darwin13.0.0/4.8.2 -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.14-bioc/meat/DNAcopy.buildbin-libdir/DNAcopy/libs
** R
** data
*** moving datasets to lazyload DB
** demo
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (DNAcopy)


>>>>>>> 
>>>>>>> FIXING LINKS FOR DNAcopy.buildbin-libdir/DNAcopy/libs//DNAcopy.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" "DNAcopy.buildbin-libdir/DNAcopy/libs//DNAcopy.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.1/Resources/lib/libgfortran.3.dylib" "DNAcopy.buildbin-libdir/DNAcopy/libs//DNAcopy.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" "DNAcopy.buildbin-libdir/DNAcopy/libs//DNAcopy.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.1/Resources/lib/libreadline.dylib" "DNAcopy.buildbin-libdir/DNAcopy/libs//DNAcopy.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.1/Resources/lib/libquadmath.0.dylib" "DNAcopy.buildbin-libdir/DNAcopy/libs//DNAcopy.so"