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Package 72/260HostnameOS / ArchBUILDCHECKBUILD BIN
externalVector 1.6.0
Biocore Team c/o BioC user list
Snapshot Date: 2008-08-08 00:12:03 -0700 (Fri, 08 Aug 2008)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_2/madman/Rpacks/externalVector
Last Changed Rev: 31430 / Revision: 33132
Last Changed Date: 2008-04-29 16:50:18 -0700 (Tue, 29 Apr 2008)
lamb1 Linux (SUSE 10.1) / x86_64  OK  OK 
wilson2 Linux (openSUSE 10.3) / x86_64  OK  OK 
wellington Linux (openSUSE 10.3) / i686  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 
Package: externalVector
Version: 1.6.0
Command: /Library/Frameworks/R.framework/Versions/2.7/Resources/bin/R CMD check externalVector_1.6.0.tar.gz
StartedAt: 2008-08-08 04:25:42 -0700 (Fri, 08 Aug 2008)
EndedAt: 2008-08-08 04:26:54 -0700 (Fri, 08 Aug 2008)
EllapsedTime: 72.5 seconds
RetCode: 0
Status: OK
CheckDir: externalVector.Rcheck
Warnings: 0

Command output

* checking for working pdflatex ... OK
* using log directory '/Users/biocbuild/bbs-2.2-bioc/meat/externalVector.Rcheck'
* using R version 2.7.1 (2008-06-23)
* using session charset: ASCII
* checking for file 'externalVector/DESCRIPTION' ... OK
* this is package 'externalVector' version '1.6.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'externalVector' can be installed ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the name space can be loaded with stated dependencies ... OK
* checking for unstated dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable use of $BLAS_LIBS ... OK
* creating externalVector-Ex.R ... OK
* checking examples ... OK
* creating externalVector-manual.tex ... OK
* checking externalVector-manual.tex using pdflatex ... OK

externalVector.Rcheck/00install.out:

* Installing *source* package 'externalVector' ...
** libs
** arch - i386
gcc -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -mmacosx-version-min=10.4 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386  -msse3    -fPIC  -g -O2 -march=nocona -c allocator.c -o allocator.o
gcc -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -mmacosx-version-min=10.4 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386  -msse3    -fPIC  -g -O2 -march=nocona -c arraySummary.c -o arraySummary.o
gcc -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -mmacosx-version-min=10.4 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386  -msse3    -fPIC  -g -O2 -march=nocona -c coerce.c -o coerce.o
coerce.c: In function 'ComplexFromString':
coerce.c:213: warning: initialization from incompatible pointer type
gcc -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -mmacosx-version-min=10.4 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386  -msse3    -fPIC  -g -O2 -march=nocona -c externalVector.c -o externalVector.o
gcc -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -mmacosx-version-min=10.4 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386  -msse3    -fPIC  -g -O2 -march=nocona -c groups.c -o groups.o
gcc -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -mmacosx-version-min=10.4 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386  -msse3    -fPIC  -g -O2 -march=nocona -c math.c -o math.o
gcc -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -mmacosx-version-min=10.4 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386  -msse3    -fPIC  -g -O2 -march=nocona -c slice.c -o slice.o
gcc -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -mmacosx-version-min=10.4 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386  -msse3    -fPIC  -g -O2 -march=nocona -c storage.c -o storage.o
gcc -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -mmacosx-version-min=10.4 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386  -msse3    -fPIC  -g -O2 -march=nocona -c subscript.c -o subscript.o
gcc -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -mmacosx-version-min=10.4 -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -mmacosx-version-min=10.4 -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o externalVector.so allocator.o arraySummary.o coerce.o externalVector.o groups.o math.o slice.o storage.o subscript.o   -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
** arch - ppc
gcc -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -mmacosx-version-min=10.4 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc  -I/usr/local/include    -fPIC  -g -O2 -c allocator.c -o allocator.o
gcc -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -mmacosx-version-min=10.4 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc  -I/usr/local/include    -fPIC  -g -O2 -c arraySummary.c -o arraySummary.o
gcc -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -mmacosx-version-min=10.4 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc  -I/usr/local/include    -fPIC  -g -O2 -c coerce.c -o coerce.o
coerce.c: In function 'ComplexFromString':
coerce.c:213: warning: initialization from incompatible pointer type
gcc -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -mmacosx-version-min=10.4 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc  -I/usr/local/include    -fPIC  -g -O2 -c externalVector.c -o externalVector.o
gcc -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -mmacosx-version-min=10.4 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc  -I/usr/local/include    -fPIC  -g -O2 -c groups.c -o groups.o
gcc -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -mmacosx-version-min=10.4 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc  -I/usr/local/include    -fPIC  -g -O2 -c math.c -o math.o
gcc -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -mmacosx-version-min=10.4 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc  -I/usr/local/include    -fPIC  -g -O2 -c slice.c -o slice.o
gcc -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -mmacosx-version-min=10.4 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc  -I/usr/local/include    -fPIC  -g -O2 -c storage.c -o storage.o
gcc -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -mmacosx-version-min=10.4 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc  -I/usr/local/include    -fPIC  -g -O2 -c subscript.c -o subscript.o
gcc -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -mmacosx-version-min=10.4 -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -mmacosx-version-min=10.4 -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o externalVector.so allocator.o arraySummary.o coerce.o externalVector.o groups.o math.o slice.o storage.o subscript.o   -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
** R
** preparing package for lazy loading
Creating a new generic function for "match" in "externalVector"
Creating a new generic function for "as.vector" in "externalVector"
Creating a new generic function for "as.single" in "externalVector"
Creating a new generic function for "as.list" in "externalVector"
Creating a new generic function for "as.matrix" in "externalVector"
Creating a new generic function for "as.data.frame" in "externalVector"
Creating a new generic function for "colSums" in "externalVector"
Creating a new generic function for "colMeans" in "externalVector"
Creating a new generic function for "rowSums" in "externalVector"
Creating a new generic function for "rowMeans" in "externalVector"
Creating a new generic function for "apply" in "externalVector"
Creating a new generic function for "lapply" in "externalVector"
Creating a new generic function for "sapply" in "externalVector"
Creating a new generic function for "mean" in "externalVector"
Creating a new generic function for "median" in "externalVector"
New generic for "var" does not agree with implicit generic from package "stats"; a new generic will be assigned with package "externalVector"
New generic for "cov" does not agree with implicit generic from package "stats"; a new generic will be assigned with package "externalVector"
New generic for "cor" does not agree with implicit generic from package "stats"; a new generic will be assigned with package "externalVector"
Creating a new generic function for "cov2cor" in "externalVector"
** help
 >>> Building/Updating help pages for package 'externalVector'
     Formats: text html latex example 
  NAIndex-class                     text    html    latex
  SubscriptList                     text    html    latex   example
  Subset                            text    html    latex
  allIndex-class                    text    html    latex
  allNA                             text    html    latex   example
  allocators                        text    html    latex
  as.Rvector                        text    html    latex   example
  asEach                            text    html    latex   example
  defaultElement                    text    html    latex   example
  exprMatrix-class                  text    html    latex
  externalAllocator-class           text    html    latex
  externalMatrix                    text    html    latex   example
  externalResource-class            text    html    latex
  externalStorage-class             text    html    latex
  externalVector-class              text    html    latex
  externalVector                    text    html    latex   example
  externalVectorWithStorage-class   text    html    latex
  gcAllocator-class                 text    html    latex   example
  getExternalStorage                text    html    latex
  getNativeStorageMethods           text    html    latex
  indirectExternalMatrix-class      text    html    latex
  indirectExternalVector-class      text    html    latex
  internalType                      text    html    latex
  makeSlice                         text    html    latex   example
  matrixIndex-class                 text    html    latex
  nativeStorageMethods-class        text    html    latex
  nativeStorageMethodsList-class    text    html    latex
  nonSlotAttributes                 text    html    latex
  noneIndex-class                   text    html    latex
  positiveIndex-class               text    html    latex
  rebind                            text    html    latex
  setDimNames                       text    html    latex
  setExternalStorageClass           text    html    latex   example
  setVirtualMethod                  text    html    latex   example
  simpleStorage-class               text    html    latex
  sliceIndex-class                  text    html    latex
  union-class                       text    html    latex
  var                               text    html    latex   example
  vectorIndex-class                 text    html    latex
** building package indices ...
* DONE (externalVector)