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BioC 3.4: CHECK report for oligo on tokay1

This page was generated on 2017-04-15 16:14:44 -0400 (Sat, 15 Apr 2017).

Package 859/1296HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
oligo 1.38.0
Benilton Carvalho
Snapshot Date: 2017-04-14 17:17:13 -0400 (Fri, 14 Apr 2017)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_4/madman/Rpacks/oligo
Last Changed Rev: 122710 / Revision: 128728
Last Changed Date: 2016-10-17 14:45:06 -0400 (Mon, 17 Oct 2016)
malbec1 Linux (Ubuntu 16.04.1 LTS) / x86_64  OK  OK  WARNINGS UNNEEDED, same version exists in internal repository
tokay1 Windows Server 2012 R2 Standard / x64  OK  OK [ WARNINGS ] OK UNNEEDED, same version exists in internal repository
morelia Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository

Summary

Package: oligo
Version: 1.38.0
Command: rm -rf oligo.buildbin-libdir oligo.Rcheck && mkdir oligo.buildbin-libdir oligo.Rcheck && C:\Users\biocbuild\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=oligo.buildbin-libdir oligo_1.38.0.tar.gz >oligo.Rcheck\00install.out 2>&1 && cp oligo.Rcheck\00install.out oligo-install.out && C:\Users\biocbuild\bbs-3.4-bioc\R\bin\R.exe CMD check --library=oligo.buildbin-libdir --install="check:oligo-install.out" --force-multiarch --no-vignettes --timings oligo_1.38.0.tar.gz
StartedAt: 2017-04-14 23:52:24 -0400 (Fri, 14 Apr 2017)
EndedAt: 2017-04-15 00:04:13 -0400 (Sat, 15 Apr 2017)
EllapsedTime: 708.7 seconds
RetCode: 0
Status:  WARNINGS  
CheckDir: oligo.Rcheck
Warnings: 1

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf oligo.buildbin-libdir oligo.Rcheck && mkdir oligo.buildbin-libdir oligo.Rcheck && C:\Users\biocbuild\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=oligo.buildbin-libdir oligo_1.38.0.tar.gz >oligo.Rcheck\00install.out 2>&1 && cp oligo.Rcheck\00install.out oligo-install.out  && C:\Users\biocbuild\bbs-3.4-bioc\R\bin\R.exe CMD check --library=oligo.buildbin-libdir --install="check:oligo-install.out" --force-multiarch --no-vignettes --timings oligo_1.38.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.4-bioc/meat/oligo.Rcheck'
* using R version 3.3.3 (2017-03-06)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'oligo/DESCRIPTION' ... OK
* this is package 'oligo' version '1.38.0'
* checking package namespace information ... OK
* checking package dependencies ... NOTE
Package which this enhances but not available for checking: 'doMC'
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'oligo' can be installed ... OK
* checking installed package size ... NOTE
  installed size is 29.4Mb
  sub-directories of 1Mb or more:
    doc      12.9Mb
    scripts  15.7Mb
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Packages listed in more than one of Depends, Imports, Suggests, Enhances:
  'biomaRt' 'AnnotationDbi' 'GenomeGraphs' 'RCurl' 'ff'
A package should be listed in only one of these fields.
* checking top-level files ... OK
* checking for left-over 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
* loading checks for arch 'i386'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... NOTE
Warning: no function found corresponding to methods exports from 'oligo' for: 'show'

A namespace must be able to be loaded with just the base namespace
loaded: otherwise if the namespace gets loaded by a saved object, the
session will be unable to start.

Probably some imports need to be declared in the NAMESPACE file.
** checking whether the namespace can be unloaded cleanly ... OK
* loading checks for arch 'x64'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... NOTE
Warning: no function found corresponding to methods exports from 'oligo' for: 'show'

A namespace must be able to be loaded with just the base namespace
loaded: otherwise if the namespace gets loaded by a saved object, the
session will be unable to start.

Probably some imports need to be declared in the NAMESPACE file.
** checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... NOTE
Unexported object imported by a ':::' call: 'Biobase:::annotatedDataFrameFromMatrix'
  See the note in ?`:::` about the use of this operator.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... NOTE
Foreign function calls to a different package:
  .Call("ReadHeader", ..., PACKAGE = "affyio")
  .Call("read_abatch", ..., PACKAGE = "affyio")
See chapter 'System and foreign language interfaces' in the 'Writing R
Extensions' manual.
* checking R code for possible problems ... NOTE
image,FeatureSet: warning in matrix(NA, nr = geom[1], nc = geom[2]):
  partial argument match of 'nr' to 'nrow'
image,FeatureSet: warning in matrix(NA, nr = geom[1], nc = geom[2]):
  partial argument match of 'nc' to 'ncol'
NUSE: no visible global function definition for 'abline'
RLE: no visible global function definition for 'abline'
basicMvApairsPlot: no visible binding for global variable
  'smoothScatter'
basicMvApairsPlot: no visible global function definition for 'frame'
basicMvApairsPlot: no visible global function definition for 'text'
basicMvApairsPlot: no visible global function definition for 'IQR'
basicMvApairsPlot: no visible global function definition for 'mtext'
basicMvAplot: no visible binding for global variable 'smoothScatter'
basicMvAplot: no visible global function definition for 'IQR'
basicMvAplot: no visible global function definition for 'loess'
basicMvAplot: no visible global function definition for 'approx'
basicMvAplot: no visible global function definition for 'abline'
basicMvAplot: no visible global function definition for 'text'
fitAffySnpMixture: no visible global function definition for
  'aggregate'
getRefDABG: no visible global function definition for 'data'
invariantsetV: no visible global function definition for
  'smooth.spline'
invariantsetV: no visible global function definition for 'approx'
loessNormV: no visible global function definition for 'loess'
loessNormV: no visible global function definition for 'predict'
maplot: no visible binding for global variable 'smoothScatter'
qsplineNorm: no visible global function definition for 'smooth.spline'
qsplineNorm: no visible global function definition for 'splinefun'
MAplot,ExpressionSet: no visible binding for global variable
  'smoothScatter'
MAplot,FeatureSet: no visible binding for global variable
  'smoothScatter'
MAplot,TilingFeatureSet: no visible binding for global variable
  'smoothScatter'
MAplot,TilingFeatureSet: no visible global function definition for
  'rnorm'
MAplot,matrix: no visible binding for global variable 'smoothScatter'
backgroundCorrect,matrix: no visible binding for global variable
  'intensities'
pmFragmentLength,AffySNPPDInfo: no visible global function definition
  for 'complete.cases'
pmindex,GenericPDInfo: no visible binding for global variable
  'man_fsetid'
Undefined global functions or variables:
  IQR abline aggregate approx complete.cases data frame intensities
  loess man_fsetid mtext predict rnorm smooth.spline smoothScatter
  splinefun text
Consider adding
  importFrom("graphics", "abline", "frame", "mtext", "smoothScatter",
             "text")
  importFrom("stats", "IQR", "aggregate", "approx", "complete.cases",
             "loess", "predict", "rnorm", "smooth.spline", "splinefun")
  importFrom("utils", "data")
to your NAMESPACE file.
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... WARNING
Codoc mismatches from documentation object 'boxplot':
\S4method{boxplot}{FeatureSet}
  Code: function(x, which = c("pm", "mm", "bg", "both", "all"), transfo
                 = log2, nsample = 10000, target = "mps1", ...)
  Docs: function(x, which = c("pm", "mm", "bg", "both", "all"), transfo
                 = log2, nsample = 10000, ...)
  Argument names in code not in docs:
    target
  Mismatches in argument names:
    Position: 5 Code: target Docs: ...

Codoc mismatches from documentation object 'hist':
\S4method{hist}{FeatureSet}
  Code: function(x, transfo = log2, which = c("pm", "mm", "bg", "both",
                 "all"), nsample = 10000, target = "mps1", ...)
  Docs: function(x, transfo = log2, which = c("pm", "mm", "bg", "both",
                 "all"), nsample = 10000, ...)
  Argument names in code not in docs:
    target
  Mismatches in argument names:
    Position: 5 Code: target Docs: ...

* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking compiled code ... NOTE
Note: information on .o files for i386 is not available
Note: information on .o files for x64 is not available
File 'C:/Users/biocbuild/bbs-3.4-bioc/meat/oligo.buildbin-libdir/oligo/libs/i386/oligo.dll':
  Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)

Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor the system RNG.
The detected symbols are linked into the code but might come from
libraries and not actually be called.

See 'Writing portable packages' in the 'Writing R Extensions' manual.
* checking installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
                    user system elapsed
preprocessTools    34.80   0.73   35.84
getProbeInfo       12.31   0.67   32.61
fitProbeLevelModel  5.34   0.20    5.74
read.celfiles       3.80   0.08   15.23
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
                 user system elapsed
preprocessTools 36.75   0.51   37.89
getProbeInfo    13.63   0.48   14.11
read.celfiles    4.86   0.21    5.06
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
  Running 'doRUnit.R'
 OK
** running tests for arch 'x64' ...
  Running 'doRUnit.R'
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 WARNING, 9 NOTEs
See
  'C:/Users/biocbuild/bbs-3.4-bioc/meat/oligo.Rcheck/00check.log'
for details.


oligo.Rcheck/00install.out:


install for i386

* installing *source* package 'oligo' ...
** libs
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/zlibbioc/include" -I"C:/Users/BIOCBU˜1/BBS-3˜1.4-B/R/include" -DNDEBUG    -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/preprocessCore/include" -I"C:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c DABG.c -o DABG.o
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/zlibbioc/include" -I"C:/Users/BIOCBU˜1/BBS-3˜1.4-B/R/include" -DNDEBUG    -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/preprocessCore/include" -I"C:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c ParserGzXYS.c -o ParserGzXYS.o
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/zlibbioc/include" -I"C:/Users/BIOCBU˜1/BBS-3˜1.4-B/R/include" -DNDEBUG    -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/preprocessCore/include" -I"C:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c ParserXYS.c -o ParserXYS.o
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/zlibbioc/include" -I"C:/Users/BIOCBU˜1/BBS-3˜1.4-B/R/include" -DNDEBUG    -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/preprocessCore/include" -I"C:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c baseProfile.c -o baseProfile.o
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/zlibbioc/include" -I"C:/Users/BIOCBU˜1/BBS-3˜1.4-B/R/include" -DNDEBUG    -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/preprocessCore/include" -I"C:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c basecontent.c -o basecontent.o
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/zlibbioc/include" -I"C:/Users/BIOCBU˜1/BBS-3˜1.4-B/R/include" -DNDEBUG    -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/preprocessCore/include" -I"C:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c chipbackground.c -o chipbackground.o
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/zlibbioc/include" -I"C:/Users/BIOCBU˜1/BBS-3˜1.4-B/R/include" -DNDEBUG    -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/preprocessCore/include" -I"C:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c mas5calls.c -o mas5calls.o
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/zlibbioc/include" -I"C:/Users/BIOCBU˜1/BBS-3˜1.4-B/R/include" -DNDEBUG    -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/preprocessCore/include" -I"C:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c rma2.c -o rma2.o
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/zlibbioc/include" -I"C:/Users/BIOCBU˜1/BBS-3˜1.4-B/R/include" -DNDEBUG    -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/preprocessCore/include" -I"C:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c rma_common.c -o rma_common.o
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/zlibbioc/include" -I"C:/Users/BIOCBU˜1/BBS-3˜1.4-B/R/include" -DNDEBUG    -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/preprocessCore/include" -I"C:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c trimmed.c -o trimmed.o
C:/Rtools/mingw_32/bin/gcc -shared -s -static-libgcc -o oligo.dll tmp.def DABG.o ParserGzXYS.o ParserXYS.o baseProfile.o basecontent.o chipbackground.o mas5calls.o rma2.o rma_common.o trimmed.o -lgfortran -lm -lquadmath -LC:/Users/BIOCBU˜1/BBS-3˜1.4-B/R/bin/i386 -lRlapack -LC:/Users/BIOCBU˜1/BBS-3˜1.4-B/R/bin/i386 -lRblas -LC:/Users/biocbuild/bbs-3.4-bioc/R/library/zlibbioc/libs/i386 -lzlib1bioc -LC:/local323/lib/i386 -LC:/local323/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.4-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.4-bioc/meat/oligo.buildbin-libdir/oligo/libs/i386
** R
** inst
** preparing package for lazy loading
Note: in method for 'pm<-' with signature
'object="TilingFeatureSet",subset="ANY",target="ANY",value="array"':
expanding the signature to include omitted arguments in definition: =
"missing"
Note: in method for 'mm<-' with signature
'object="TilingFeatureSet",subset="ANY",target="ANY",value="array"':
expanding the signature to include omitted arguments in definition: =
"missing"
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded

install for x64

* installing *source* package 'oligo' ...
** libs
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/zlibbioc/include" -I"C:/Users/BIOCBU˜1/BBS-3˜1.4-B/R/include" -DNDEBUG    -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/preprocessCore/include" -I"C:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c DABG.c -o DABG.o
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/zlibbioc/include" -I"C:/Users/BIOCBU˜1/BBS-3˜1.4-B/R/include" -DNDEBUG    -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/preprocessCore/include" -I"C:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c ParserGzXYS.c -o ParserGzXYS.o
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/zlibbioc/include" -I"C:/Users/BIOCBU˜1/BBS-3˜1.4-B/R/include" -DNDEBUG    -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/preprocessCore/include" -I"C:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c ParserXYS.c -o ParserXYS.o
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/zlibbioc/include" -I"C:/Users/BIOCBU˜1/BBS-3˜1.4-B/R/include" -DNDEBUG    -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/preprocessCore/include" -I"C:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c baseProfile.c -o baseProfile.o
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/zlibbioc/include" -I"C:/Users/BIOCBU˜1/BBS-3˜1.4-B/R/include" -DNDEBUG    -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/preprocessCore/include" -I"C:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c basecontent.c -o basecontent.o
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/zlibbioc/include" -I"C:/Users/BIOCBU˜1/BBS-3˜1.4-B/R/include" -DNDEBUG    -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/preprocessCore/include" -I"C:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c chipbackground.c -o chipbackground.o
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/zlibbioc/include" -I"C:/Users/BIOCBU˜1/BBS-3˜1.4-B/R/include" -DNDEBUG    -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/preprocessCore/include" -I"C:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c mas5calls.c -o mas5calls.o
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/zlibbioc/include" -I"C:/Users/BIOCBU˜1/BBS-3˜1.4-B/R/include" -DNDEBUG    -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/preprocessCore/include" -I"C:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c rma2.c -o rma2.o
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/zlibbioc/include" -I"C:/Users/BIOCBU˜1/BBS-3˜1.4-B/R/include" -DNDEBUG    -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/preprocessCore/include" -I"C:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c rma_common.c -o rma_common.o
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/zlibbioc/include" -I"C:/Users/BIOCBU˜1/BBS-3˜1.4-B/R/include" -DNDEBUG    -I"C:/Users/biocbuild/bbs-3.4-bioc/R/library/preprocessCore/include" -I"C:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c trimmed.c -o trimmed.o
C:/Rtools/mingw_64/bin/gcc -shared -s -static-libgcc -o oligo.dll tmp.def DABG.o ParserGzXYS.o ParserXYS.o baseProfile.o basecontent.o chipbackground.o mas5calls.o rma2.o rma_common.o trimmed.o -lgfortran -lm -lquadmath -LC:/Users/BIOCBU˜1/BBS-3˜1.4-B/R/bin/x64 -lRlapack -LC:/Users/BIOCBU˜1/BBS-3˜1.4-B/R/bin/x64 -lRblas -LC:/Users/biocbuild/bbs-3.4-bioc/R/library/zlibbioc/libs/x64 -lzlib1bioc -LC:/local323/lib/x64 -LC:/local323/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.4-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.4-bioc/meat/oligo.buildbin-libdir/oligo/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'oligo' as oligo_1.38.0.zip
* DONE (oligo)

oligo.Rcheck/examples_i386/oligo-Ex.timings:

nameusersystemelapsed
Index-methods0.010.000.01
IntensityMatrix-methods1.990.003.74
MAplot-methods2.470.102.77
basecontent000
basicPLM4.550.004.58
basicRMA4.760.004.76
colors0.040.000.03
coordinates000
fitProbeLevelModel5.340.205.74
getProbeInfo12.31 0.6732.61
image1.130.051.17
justSNPRMA000
list.xysfiles000
oligoPLM-class000
paCalls0.010.000.02
preprocessTools34.80 0.7335.84
read.celfiles 3.80 0.0815.23
read.xysfiles1.220.051.27
rma-methods3.470.003.47
sequenceDesignMatrix000

oligo.Rcheck/examples_x64/oligo-Ex.timings:

nameusersystemelapsed
Index-methods000
IntensityMatrix-methods1.560.001.57
MAplot-methods1.940.041.99
basecontent000
basicPLM4.310.054.39
basicRMA4.330.054.37
colors0.010.010.03
coordinates000
fitProbeLevelModel4.720.184.89
getProbeInfo13.63 0.4814.11
image0.920.050.97
justSNPRMA000
list.xysfiles000
oligoPLM-class000
paCalls000
preprocessTools36.75 0.5137.89
read.celfiles4.860.215.06
read.xysfiles1.000.011.02
rma-methods3.100.003.09
sequenceDesignMatrix0.010.000.02