Back to Multiple platform build/check report for BioC 3.14
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This page was generated on 2022-01-19 13:07:31 -0500 (Wed, 19 Jan 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.2 (2021-11-01) -- "Bird Hippie" 4328
tokay2Windows Server 2012 R2 Standardx644.1.2 (2021-11-01) -- "Bird Hippie" 4077
machv2macOS 10.14.6 Mojavex86_644.1.2 (2021-11-01) -- "Bird Hippie" 4138
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

CHECK results for tofsims on tokay2


To the developers/maintainers of the tofsims package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/tofsims.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 1970/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
tofsims 1.22.0  (landing page)
Lorenz Gerber
Snapshot Date: 2022-01-18 01:55:07 -0500 (Tue, 18 Jan 2022)
git_url: https://git.bioconductor.org/packages/tofsims
git_branch: RELEASE_3_14
git_last_commit: 6cfbd33
git_last_commit_date: 2021-10-26 12:24:38 -0500 (Tue, 26 Oct 2021)
nebbiolo2Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: tofsims
Version: 1.22.0
Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:tofsims.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings tofsims_1.22.0.tar.gz
StartedAt: 2022-01-19 03:50:28 -0500 (Wed, 19 Jan 2022)
EndedAt: 2022-01-19 03:58:22 -0500 (Wed, 19 Jan 2022)
EllapsedTime: 473.8 seconds
RetCode: 0
Status:   OK  
CheckDir: tofsims.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:tofsims.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings tofsims_1.22.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/tofsims.Rcheck'
* using R version 4.1.2 (2021-11-01)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'tofsims/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'tofsims' version '1.22.0'
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* 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 'tofsims' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... OK
* 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 ... OK
** 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 ... OK
** checking whether the namespace can be unloaded cleanly ... OK
* checking 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 metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* 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 use of PKG_*FLAGS in Makefiles ... 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-3.14-bioc/R/library/tofsims/libs/i386/tofsims.dll':
  Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
  Found 'exit', possibly from 'exit' (C), 'stop' (Fortran)
  Found 'printf', possibly from 'printf' (C)
File 'C:/Users/biocbuild/bbs-3.14-bioc/R/library/tofsims/libs/x64/tofsims.dll':
  Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
  Found 'exit', possibly from 'exit' (C), 'stop' (Fortran)
  Found 'printf', possibly from 'printf' (C)

Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor use Fortran I/O
nor system RNGs. 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 files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU (user + system) or elapsed time > 5s
              user system elapsed
bwApply       6.86   0.26    7.12
peakWidths    5.61   0.75    6.36
findPeakWidth 5.41   0.62    6.03
pcaScores     5.58   0.16    5.74
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
              user system elapsed
bwApply       6.75   0.18    6.94
peakWidths    5.84   0.58    6.42
findPeakWidth 5.48   0.78    6.28
pcaScores     4.99   0.12    5.11
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
  Running 'testthat.R'
 OK
** running tests for arch 'x64' ...
  Running 'testthat.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 NOTE
See
  'C:/Users/biocbuild/bbs-3.14-bioc/meat/tofsims.Rcheck/00check.log'
for details.



Installation output

tofsims.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/tofsims_1.22.0.tar.gz && rm -rf tofsims.buildbin-libdir && mkdir tofsims.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=tofsims.buildbin-libdir tofsims_1.22.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL tofsims_1.22.0.zip && rm tofsims_1.22.0.tar.gz tofsims_1.22.0.zip
###
##############################################################################
##############################################################################


  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100  106k  100  106k    0     0   795k      0 --:--:-- --:--:-- --:--:--  800k

install for i386

* installing *source* package 'tofsims' ...
** using staged installation
** libs
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/RcppArmadillo/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c LapackEigen.cpp -o LapackEigen.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/RcppArmadillo/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c RcppExports.cpp -o RcppExports.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/RcppArmadillo/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c c_importer.cpp -o c_importer.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/RcppArmadillo/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c nn.cpp -o nn.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/RcppArmadillo/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c readRawPhi.cpp -o readRawPhi.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/RcppArmadillo/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c utilities.cpp -o utilities.o
C:/rtools40/mingw32/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o tofsims.dll tmp.def LapackEigen.o RcppExports.o c_importer.o nn.o readRawPhi.o utilities.o -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/i386 -lRblas -lgfortran -lm -lquadmath -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/i386 -lRlapack -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.14-bioc/meat/tofsims.buildbin-libdir/00LOCK-tofsims/00new/tofsims/libs/i386
** R
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'tofsims'
    finding HTML links ... done
    EigenDecompose                          html  
    LapackGenEigen                          html  
    MAF                                     html  
    MCR                                     html  
    MNF                                     html  
    MassImage                               html  
    MassSpectra                             html  
    PCA-class                               html  
    PCAnalysis                              html  
    PeakList                                html  
    PrComp                                  html  
REDIRECT:topic	 Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.14-bioc/meat/tofsims.buildbin-libdir/00LOCK-tofsims/00new/tofsims/help/prComp.html
    PrinComp                                html  
REDIRECT:topic	 Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.14-bioc/meat/tofsims.buildbin-libdir/00LOCK-tofsims/00new/tofsims/help/prinComp.html
    RSS-MCR-method                          html  
    RSS                                     html  
    SNR                                     html  
    addFixedWidth                           html  
    addPeaks                                html  
    analysis                                html  
    finding level-2 HTML links ... done

    analysisName                            html  
    baseObject-PrComp-method                html  
    baseObject-PrinComp-method              html  
    baseObject                              html  
    binning                                 html  
    bwApply                                 html  
    cReadRawPhi                             html  
    calibPointNew                           html  
    calibPoints                             html  
    calibration                             html  
    changePeakWidth                         html  
    check.extension                         html  
    computeMNF                              html  
    computeNoise                            html  
    coordToPixel-MassImage-numeric-method   html  
    coordToPixel                            html  
    covDiffCalc                             html  
    ctable                                  html  
REDIRECT:topic	 Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.14-bioc/meat/tofsims.buildbin-libdir/00LOCK-tofsims/00new/tofsims/help/cTable.html
    dim-MassImage-method                    html  
    dim-MassSpectra-method                  html  
    extract.header.data                     html  
    findClosestMatch                        html  
    findPeakWidth                           html  
    getTOFs                                 html  
    image                                   html  
    imageMatrix                             html  
    import                                  html  
    import.raw                              html  
    instrument                              html  
    iters-MCR-method                        html  
    iters                                   html  
    itzipName-set                           html  
    itzipName                               html  
    legend.col                              html  
    look.for.itzip.property                 html  
    makeTIC-MassSpectra-method              html  
    makeTIC                                 html  
    manualSelectPeaks                       html  
    mz                                      html  
    nComp                                   html  
    nPeaks                                  html  
    ndim-MassSpectra-method                 html  
    ndim                                    html  
    nearestNeighbourMean                    html  
    nnMNF                                   html  
    nnMean                                  html  
    noPlottingData-PCA-method               html  
    noPlottingData                          html  
    nz                                      html  
    overlayPlot                             html  
    parIndicesSearch                        html  
    pcaLoadings                             html  
    pcaMAF                                  html  
    pcaScores                               html  
    peakIDs                                 html  
    peakMzs                                 html  
    peakPick                                html  
    peakWidths                              html  
    peaks2Spectra                           html  
    plot-MassImage-missing-method           html  
    plot-PeakList-missing-method            html  
    plot                                    html  
    points                                  html  
    poissonScaling                          html  
    readBIF                                 html  
    recalibrate                             html  
    reduceSpectrumResolution                html  
    removePeaks                             html  
    resids-MCR-method                       html  
    resids                                  html  
    scale                                   html  
    show-MassImage-method                   html  
    show-MassSpectra-method                 html  
    show-PeakList-method                    html  
    smoothScatter                           html  
    smootherGolay                           html  
    smootherSpline                          html  
    subset                                  html  
    tofsims-package                         html  
    unitMassPeaks                           html  
    validMassImageObject                    html  
    validMassSpectraObject                  html  
    validPCAObject                          html  
    validPeakListObject                     html  
    xdim-MassImage-method                   html  
    xdim-PCA-method                         html  
    xdim-set                                html  
    xdim                                    html  
    xy                                      html  
    xySpec                                  html  
    ydim-MassImage-method                   html  
    ydim-PCA-method                         html  
    ydim-set                                html  
    ydim                                    html  
    zdim-MassSpectra-method                 html  
    zdim                                    html  
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path

install for x64

* installing *source* package 'tofsims' ...
** libs
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/RcppArmadillo/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c LapackEigen.cpp -o LapackEigen.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/RcppArmadillo/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c RcppExports.cpp -o RcppExports.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/RcppArmadillo/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c c_importer.cpp -o c_importer.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/RcppArmadillo/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c nn.cpp -o nn.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/RcppArmadillo/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c readRawPhi.cpp -o readRawPhi.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/RcppArmadillo/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c utilities.cpp -o utilities.o
C:/rtools40/mingw64/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o tofsims.dll tmp.def LapackEigen.o RcppExports.o c_importer.o nn.o readRawPhi.o utilities.o -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/x64 -lRblas -lgfortran -lm -lquadmath -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/x64 -lRlapack -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.14-bioc/meat/tofsims.buildbin-libdir/tofsims/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'tofsims' as tofsims_1.22.0.zip
* DONE (tofsims)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'tofsims' successfully unpacked and MD5 sums checked

Tests output

tofsims.Rcheck/tests_i386/testthat.Rout


R version 4.1.2 (2021-11-01) -- "Bird Hippie"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: i386-w64-mingw32/i386 (32-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(testthat)
> library(tofsims)
Loading required package: ProtGenerics

Attaching package: 'ProtGenerics'

The following object is masked from 'package:stats':

    smooth

> library(tofsimsData)
> 
> test_check("tofsims")
                                             analysisName instrument no.spectra
1 /Users/loge/Data/ULVACPHI/RAW/080414/trift_test_001.RAW   ulvacphi     65'536
  spectra.points total.ion.count x.image.dimension y.image.dimention analysis
1            200       1'859'292               256               256     none
                                             analysisName instrument no.spectra
1 /Users/loge/Data/ULVACPHI/RAW/080414/trift_test_001.RAW   ulvacphi          1
  spectra.points total.ion.count analysis
1        162'255       2'033'289     none
[ FAIL 0 | WARN 53 | SKIP 0 | PASS 73 ]
> 
> proc.time()
   user  system elapsed 
  78.60    7.21   87.17 

tofsims.Rcheck/tests_x64/testthat.Rout


R version 4.1.2 (2021-11-01) -- "Bird Hippie"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(testthat)
> library(tofsims)
Loading required package: ProtGenerics

Attaching package: 'ProtGenerics'

The following object is masked from 'package:stats':

    smooth

> library(tofsimsData)
> 
> test_check("tofsims")
                                             analysisName instrument no.spectra
1 /Users/loge/Data/ULVACPHI/RAW/080414/trift_test_001.RAW   ulvacphi     65'536
  spectra.points total.ion.count x.image.dimension y.image.dimention analysis
1            200       1'859'292               256               256     none
                                             analysisName instrument no.spectra
1 /Users/loge/Data/ULVACPHI/RAW/080414/trift_test_001.RAW   ulvacphi          1
  spectra.points total.ion.count analysis
1        162'255       2'033'289     none
[ FAIL 0 | WARN 53 | SKIP 0 | PASS 73 ]
> 
> proc.time()
   user  system elapsed 
  98.53    7.04  105.67 

Example timings

tofsims.Rcheck/examples_i386/tofsims-Ex.timings

nameusersystemelapsed
MAF1.720.082.63
MCR0.110.040.15
MNF0.110.000.29
MassImage0.020.000.01
MassSpectra0.050.000.05
PCAnalysis0.030.000.03
PeakList3.080.613.69
PrComp0.030.000.03
PrinComp0.020.000.02
addFixedWidth2.610.352.96
addPeaks1.220.041.26
analysis4.470.084.55
analysisName1.120.111.23
binning0.270.080.35
bwApply6.860.267.12
calibPointNew1.500.041.53
calibPoints1.250.041.30
calibration1.390.061.45
changePeakWidth1.390.101.49
findPeakWidth5.410.626.03
getTOFs1.120.031.16
image4.750.084.82
imageMatrix2.300.272.57
instrument1.330.001.33
mz1.170.031.20
nComp4.180.094.27
nPeaks2.370.933.30
nnMNF0.100.010.11
nz1.060.031.09
overlayPlot1.340.221.56
pcaLoadings4.160.094.25
pcaScores5.580.165.74
peakIDs2.420.783.20
peakMzs2.670.863.53
peakPick3.560.303.86
peakWidths5.610.756.36
peaks2Spectra1.970.312.28
plot1.310.021.33
points1.660.031.69
poissonScaling0.020.000.01
recalibrate1.640.061.71
reduceSpectrumResolution1.220.031.25
removePeaks1.310.051.36
scale0.030.000.03
smoothScatter4.690.144.83
smootherGolay1.090.031.12
smootherSpline2.220.692.91
subset1.000.041.04
unitMassPeaks2.660.633.28
xy1.060.031.10
xySpec1.230.031.26

tofsims.Rcheck/examples_x64/tofsims-Ex.timings

nameusersystemelapsed
MAF1.010.021.03
MCR0.080.000.08
MNF0.090.010.14
MassImage0.020.000.02
MassSpectra0.070.000.07
PCAnalysis0.040.000.04
PeakList2.380.703.08
PrComp0.030.000.03
PrinComp0.010.000.02
addFixedWidth2.190.252.44
addPeaks1.020.191.20
analysis4.390.084.46
analysisName0.990.021.00
binning0.290.030.33
bwApply6.750.186.94
calibPointNew1.460.001.45
calibPoints0.860.040.89
calibration0.840.090.94
changePeakWidth0.840.020.86
findPeakWidth5.480.786.28
getTOFs0.840.030.88
image4.290.084.36
imageMatrix2.310.152.47
instrument1.100.161.25
mz0.980.011.00
nComp4.020.044.05
nPeaks2.360.763.12
nnMNF0.120.000.13
nz1.020.001.01
overlayPlot1.260.081.35
pcaLoadings3.890.083.97
pcaScores4.990.125.11
peakIDs2.330.562.89
peakMzs1.980.652.62
peakPick3.000.233.24
peakWidths5.840.586.42
peaks2Spectra1.470.291.77
plot1.050.001.05
points1.320.191.51
poissonScaling0.020.000.02
recalibrate0.970.031.00
reduceSpectrumResolution0.890.050.93
removePeaks0.920.020.94
scale0.010.000.01
smoothScatter3.950.074.03
smootherGolay1.000.051.05
smootherSpline2.130.362.49
subset0.980.021.00
unitMassPeaks2.330.532.86
xy0.970.000.96
xySpec1.000.011.02