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Package 38/294HostnameOS / ArchBUILDCHECKBUILD BIN
bgx 1.6.0
Ernest Turro
Bioconductor Changelog
Snapshot Date: 2009-04-18 11:27:48 -0700 (Sat, 18 Apr 2009)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_3/madman/Rpacks/bgx
Last Changed Rev: 34811 / Revision: 38965
Last Changed Date: 2008-10-21 15:32:58 -0700 (Tue, 21 Oct 2008)
wilson2 Linux (openSUSE 11.1) / x86_64  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  OK  OK 
pitt Mac OS X Tiger (10.4.11) / i386  OK  OK  OK 
pelham Mac OS X Leopard (10.5.6) / i386 [ OK ] OK  OK 
Package: bgx
Version: 1.6.0
Command: /Library/Frameworks/R.framework/Versions/2.8/Resources/bin/R CMD build bgx
StartedAt: 2009-04-18 16:04:14 -0700 (Sat, 18 Apr 2009)
EndedAt: 2009-04-18 16:06:37 -0700 (Sat, 18 Apr 2009)
EllapsedTime: 142.9 seconds
RetCode: 0
Status: OK
PackageFile: bgx_1.6.0.tar.gz
PackageFileSize: 1.164 MiB

Command output

* checking for file 'bgx/DESCRIPTION' ... OK
* preparing 'bgx':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to re-build vignettes
* Installing *source* package 'bgx' ...
checking for gcc... gcc-4.2 -arch i386 -std=gnu99
checking for C compiler default output file name... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables... 
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc-4.2 -arch i386 -std=gnu99 accepts -g... yes
checking for gcc-4.2 -arch i386 -std=gnu99 option to accept ISO C89... none needed
checking for C compiler vendor... gnu
checking whether C compiler accepts -ffast-math... yes
checking whether C compiler accepts -O3... yes
checking build system type... i386-apple-darwin9.6.0
checking host system type... i386-apple-darwin9.6.0
checking for gcc architecture flag... 
checking for x86 cpuid 0 output... unknown
checking for x86 cpuid 1 output... unknown
checking for gcc architecture flag... unknown
checking for gcc-4.2 -arch i386 -std=gnu99 option to accept ISO C99... none needed
checking for main in -lm... yes
Untarring Boost header files...
checking for an ANSI C-conforming const... yes
checking for inline... inline
configure: creating ./config.status
config.status: creating src/Makevars
** libs
** arch - i386
g++-4.0 -arch i386 -I/Library/Frameworks/R.framework/Versions/2.8/Resources/include -I/Library/Frameworks/R.framework/Versions/2.8/Resources/include/i386 -I ../boostIncl -I/usr/local/include    -fPIC  -g -O2 -Wall -fasm-blocks -ffast-math -O3 -DUSING_R -c bgx.cc -o bgx.o
g++-4.0 -arch i386 -I/Library/Frameworks/R.framework/Versions/2.8/Resources/include -I/Library/Frameworks/R.framework/Versions/2.8/Resources/include/i386 -I ../boostIncl -I/usr/local/include    -fPIC  -g -O2 -Wall -fasm-blocks -ffast-math -O3 -DUSING_R -c bgx_frontend.cc -o bgx_frontend.o
gcc-4.2 -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.8/Resources/include -I/Library/Frameworks/R.framework/Versions/2.8/Resources/include/i386 -I ../boostIncl -I/usr/local/include    -fPIC  -g -O2 -Wall -g -O2  -ffast-math -O3 -c qnorm.c -o qnorm.o
g++-4.0 -arch i386 -I/Library/Frameworks/R.framework/Versions/2.8/Resources/include -I/Library/Frameworks/R.framework/Versions/2.8/Resources/include/i386 -I ../boostIncl -I/usr/local/include    -fPIC  -g -O2 -Wall -fasm-blocks -ffast-math -O3 -DUSING_R -c rundir.cc -o rundir.o
g++-4.0 -arch i386 -I/Library/Frameworks/R.framework/Versions/2.8/Resources/include -I/Library/Frameworks/R.framework/Versions/2.8/Resources/include/i386 -I ../boostIncl -I/usr/local/include    -fPIC  -g -O2 -Wall -fasm-blocks -ffast-math -O3 -DUSING_R -c sokal.cc -o sokal.o
g++-4.2 -arch i386 -dynamiclib -Wl,-headerpad_max_install_names  -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o bgx.so bgx.o bgx_frontend.o qnorm.o rundir.o sokal.o -lm   -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
rm -r ../boostIncl
** R
** inst
** preparing package for lazy loading
Loading required package: Biobase
Loading required package: tools

Welcome to Bioconductor

  Vignettes contain introductory material. To view, type
  'openVignette()'. To cite Bioconductor, see
  'citation("Biobase")' and for packages 'citation(pkgname)'.

Loading required package: affy
Loading required package: gcrma
Loading required package: matchprobes
Loading required package: splines
** help
 >>> Building/Updating help pages for package 'bgx'
     Formats: text html latex example 
Note: removing empty section \examples in file 'analysis.bgx.Rd'
  analysis.bgx                      text    html    latex
  bgx                               text    html    latex   example
Note: removing empty section \examples in file 'mcmc.bgx.Rd'
  mcmc.bgx                          text    html    latex
Note: removing empty section \examples in file 'readOutput.bgx.Rd'
  readOutput.bgx                    text    html    latex
Note: removing empty section \value in file 'saveAffinityPlot.bgx.Rd'
Note: removing empty section \details in file 'saveAffinityPlot.bgx.Rd'
Note: removing empty section \examples in file 'saveAffinityPlot.bgx.Rd'
  saveAffinityPlot.bgx              text    html    latex
Note: removing empty section \details in file 'setupVars.bgx.Rd'
Note: removing empty section \examples in file 'setupVars.bgx.Rd'
  setupVars.bgx                     text    html    latex
** building package indices ...
* DONE (bgx)
* creating vignettes ... OK
* cleaning src
* removing junk files
* checking for LF line-endings in source and make files
* checking for empty or unneeded directories
* building 'bgx_1.6.0.tar.gz'