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Package 130/319HostnameOS / ArchBUILDCHECKBUILD BIN
GlobalAncova 3.10.0
R. Meister
Bioconductor Changelog
Snapshot Date: 2009-10-20 11:27:33 -0700 (Tue, 20 Oct 2009)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_4/madman/Rpacks/GlobalAncova
Last Changed Rev: 39013 / Revision: 42512
Last Changed Date: 2009-04-20 16:24:12 -0700 (Mon, 20 Apr 2009)
wilson1 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 (10.5.8) / i386  OK  OK  OK 
Package: GlobalAncova
Version: 3.10.0
Command: /Library/Frameworks/R.framework/Versions/2.9/Resources/bin/R CMD check --no-vignettes GlobalAncova_3.10.0.tar.gz
StartedAt: 2009-10-20 17:44:59 -0700 (Tue, 20 Oct 2009)
EndedAt: 2009-10-20 17:46:45 -0700 (Tue, 20 Oct 2009)
EllapsedTime: 106.9 seconds
RetCode: 0
Status: OK
CheckDir: GlobalAncova.Rcheck
Warnings: 0

Command output

* checking for working pdflatex ... OK
* using log directory '/Users/biocbuild/bbs-2.4-bioc/meat/GlobalAncova.Rcheck'
* using R version 2.9.2 Patched (2009-08-24 r49419)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'GlobalAncova/DESCRIPTION' ... OK
* this is package 'GlobalAncova' version '3.10.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'GlobalAncova' 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 files against version 2 parser ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking data for non-ASCII characters ... 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
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK

GlobalAncova.Rcheck/00install.out:

* Installing *source* package ‘GlobalAncova’ ...
** libs
** arch - i386
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -c GlobalAncova.c -o GlobalAncova.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -c ludcmp.c -o ludcmp.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -c matrix.c -o matrix.o
gcc -arch i386 -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 GlobalAncova.so GlobalAncova.o ludcmp.o matrix.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
** arch - ppc
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include    -fPIC  -g -O2 -c GlobalAncova.c -o GlobalAncova.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include    -fPIC  -g -O2 -c ludcmp.c -o ludcmp.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include    -fPIC  -g -O2 -c matrix.c -o matrix.o
gcc -arch ppc -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 GlobalAncova.so GlobalAncova.o ludcmp.o matrix.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
** R
** data
** inst
** preparing package for lazy loading
Warning in conformMethod(signature, mnames, fnames, f, fdef, definition) :
  In method for function "pGAapprox": formal arguments in method and function do not appear in the same order
Warning in rematchDefinition(definition, fdef, mnames, fnames, signature) :
  Arguments of method and generic are not in the same order
Warning in conformMethod(signature, mnames, fnames, f, fdef, definition) :
  In method for function "GlobalAncova.closed": formal arguments in method and function do not appear in the same order
Warning in rematchDefinition(definition, fdef, mnames, fnames, signature) :
  Arguments of method and generic are not in the same order
Warning in conformMethod(signature, mnames, fnames, f, fdef, definition) :
  In method for function "Plot.genes": formal arguments in method and function do not appear in the same order
Warning in conformMethod(signature, mnames, fnames, f, fdef, definition) :
  In method for function "Plot.subjects": formal arguments in method and function do not appear in the same order
** help
*** installing help indices
 >>> Building/Updating help pages for package 'GlobalAncova'
     Formats: text html latex example 
  GAGO                              text    html    latex   example
  GlobalAncova-methods              text    html    latex
  GlobalAncova                      text    html    latex   example
  GlobalAncova.closed-methods       text    html    latex
  GlobalAncova.closed               text    html    latex
  GlobalAncova.decomp               text    html    latex   example
  Plot.all                          text    html    latex   example
  Plot.genes-methods                text    html    latex
  Plot.genes                        text    html    latex   example
  Plot.sequential                   text    html    latex   example
  Plot.subjects-methods             text    html    latex
  Plot.subjects                     text    html    latex   example
  colon.normal                      text    html    latex   example
  colon.pheno                       text    html    latex   example
  colon.tumour                      text    html    latex   example
  pair.compare                      text    html    latex   example
  pathways                          text    html    latex   example
  phenodata                         text    html    latex   example
  vantVeer                          text    html    latex   example
** building package indices ...
* DONE (GlobalAncova)