• using R Under development (unstable) (2012-05-22 r59405)
  • using platform: x86_64-unknown-linux-gnu (64-bit)
  • using session charset: UTF-8
  • checking for file ‘rTOFsPRO/DESCRIPTION’ ... OK
  • checking extension type ... Package
  • this is package ‘rTOFsPRO’ version ‘1.4.1’
  • checking package dependencies ... OK
  • checking if this is a source package ... OK
  • checking if there is a namespace ... WARNING
    As from R 2.14.0 all packages need a namespace.
    One will be generated on installation, but it is better to handcraft a
    NAMESPACE file: R CMD build will produce a suitable starting point.
    CRAN requires a NAMESPACE file for all submissions.
  • checking for executable files ... OK
  • checking whether package ‘rTOFsPRO’ can be installed ... OK
  • checking installed package size ... 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 package can be unloaded cleanly ... OK
  • checking loading without being on the library search path ... 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 ... NOTE
    mainRTOFsPROc: no visible binding for global variable ‘TOFfileDIR’
    mainRTOFsPROc: no visible binding for global variable ‘monitorMemory’
    mainRTOFsPROc: no visible binding for global variable ‘averageOnly’
    mainRTOFsPROc: no visible binding for global variable ‘rTofFileNames’
    mainRTOFsPROc: no visible binding for global variable
    ‘rTofMetaFileNames’
    mainRTOFsPROc: no visible binding for global variable ‘osS’
    mainRTOFsPROc: no visible binding for global variable ‘paMethod’
    mainRTOFsPROc: no visible binding for global variable ‘detect’
    mainRTOFsPROc: no visible binding for global variable ‘bsS’
    mainRTOFsPROc: no visible binding for global variable ‘mCH’
    mainRTOFsPROc: no visible binding for global variable ‘pikw0’
    mainRTOFsPROc: no visible binding for global variable ‘noiseThres’
    mainRTOFsPROc: no visible binding for global variable ‘startS’
    mainRTOFsPROc: no visible binding for global variable ‘endS’
    mainRTOFsPROc: no visible binding for global variable ‘appli’
    mainRTOFsPROc: no visible binding for global variable ‘bsMethod’
    mainRTOFsPROc: no visible binding for global variable ‘amp’
    mainRTOFsPROc: no visible binding for global variable ‘decay’
    mainRTOFsPROc: no visible binding for global variable ‘useMeta’
    mainRTOFsPROc: no visible binding for global variable ‘nDelay’
    mainRTOFsPROc: no visible binding for global variable ‘A’
    mainRTOFsPROc: no visible binding for global variable ‘B’
    mainRTOFsPROc: no visible binding for global variable ‘instrPrc’
    mainRTOFsPROc: no visible binding for global variable ‘p1’
    mainRTOFsPROc: no visible binding for global variable ‘p2’
    mainRTOFsPROc: no visible binding for global variable ‘p3’
    mainRTOFsPROc: no visible binding for global variable ‘mpikw’
    mainRTOFsPROc: no visible binding for global variable ‘lasym0’
    mainRTOFsPROc: no visible binding for global variable ‘Gnoise’
    mainRTOFsPROc: no visible binding for global variable ‘algo’
    mainRTOFsPROc: no visible binding for global variable ‘nsdepBS’
    mainRTOFsPROc: no visible binding for global variable ‘prMethod’
    mainRTOFsPROc: no visible binding for global variable ‘nf’
    mainRTOFsPROc: no visible binding for global variable ‘saveOut’
    mainRTOFsPROc: no visible binding for global variable ‘ppMethod’
    mainRTOFsPROc: no visible binding for global variable ‘snr’
    mainRTOFsPROc: no visible binding for global variable ‘startPP’
    mainRTOFsPROc: no visible binding for global variable ‘alMethod’
    mainRTOFsPROc: no visible binding for global variable ‘noPL’
    mainRTOFsPROc: no visible binding for global variable ‘tStart’
    mainRTOFsPROc: no visible binding for global variable ‘tEnd’
    mainRTOFsPROc: no visible binding for global variable ‘align2Training’
    mainRTOFsPROc: no visible binding for global variable
    ‘aplTrainFileName’
    mainRTOFsPROc: no visible binding for global variable ‘aplTrain’
    mainRTOFsPROc: no visible binding for global variable ‘maxShift’
    mainRTOFsPROc: no visible binding for global variable ‘alPeakDomain’
    mainRTOFsPROc: no visible binding for global variable ‘save4Mlb’
    mainRTOFsPROcModular: no visible binding for global variable
    ‘TOFfileDIR’
    mainRTOFsPROcModular: no visible binding for global variable
    ‘monitorMemory’
    mainRTOFsPROcModular: no visible binding for global variable
    ‘averageOnly’
    mainRTOFsPROcModular: no visible binding for global variable
    ‘rTofFileNames’
    mainRTOFsPROcModular: no visible binding for global variable ‘dbgmode’
    mainRTOFsPROcModular: no visible binding for global variable
    ‘rTofMetaFileNames’
    mainRTOFsPROcModular: no visible binding for global variable ‘osS’
    mainRTOFsPROcModular: no visible binding for global variable ‘paMethod’
    mainRTOFsPROcModular: no visible binding for global variable ‘detect’
    mainRTOFsPROcModular: no visible binding for global variable ‘bsS’
    mainRTOFsPROcModular: no visible binding for global variable ‘mCH’
    mainRTOFsPROcModular: no visible binding for global variable ‘pikw0’
    mainRTOFsPROcModular: no visible binding for global variable
    ‘noiseThres’
    mainRTOFsPROcModular: no visible binding for global variable ‘startS’
    mainRTOFsPROcModular: no visible binding for global variable ‘endS’
    mainRTOFsPROcModular: no visible binding for global variable ‘appli’
    mainRTOFsPROcModular: no visible binding for global variable ‘bsMethod’
    mainRTOFsPROcModular: no visible binding for global variable ‘amp’
    mainRTOFsPROcModular: no visible binding for global variable ‘decay’
    mainRTOFsPROcModular: no visible binding for global variable ‘useMeta’
    mainRTOFsPROcModular: no visible binding for global variable ‘nDelay’
    mainRTOFsPROcModular: no visible binding for global variable ‘A’
    mainRTOFsPROcModular: no visible binding for global variable ‘B’
    mainRTOFsPROcModular: no visible binding for global variable ‘instrPrc’
    mainRTOFsPROcModular: no visible binding for global variable ‘p1’
    mainRTOFsPROcModular: no visible binding for global variable ‘p2’
    mainRTOFsPROcModular: no visible binding for global variable ‘p3’
    mainRTOFsPROcModular: no visible binding for global variable ‘mpikw’
    mainRTOFsPROcModular: no visible binding for global variable ‘lasym0’
    mainRTOFsPROcModular: no visible binding for global variable ‘Gnoise’
    mainRTOFsPROcModular: no visible binding for global variable ‘algo’
    mainRTOFsPROcModular: no visible binding for global variable ‘nsdepBS’
    mainRTOFsPROcModular: no visible binding for global variable ‘backIntr’
    mainRTOFsPROcModular: no visible binding for global variable ‘saveOut’
    mainRTOFsPROcModular: no visible binding for global variable ‘prMethod’
    mainRTOFsPROcModular: no visible binding for global variable ‘nf’
    mainRTOFsPROcModular: no visible binding for global variable ‘ppMethod’
    mainRTOFsPROcModular: no visible binding for global variable ‘snr’
    mainRTOFsPROcModular: no visible binding for global variable ‘startPP’
    mainRTOFsPROcModular: no visible binding for global variable ‘alMethod’
    mainRTOFsPROcModular: no visible binding for global variable ‘noPL’
    mainRTOFsPROcModular: no visible binding for global variable ‘tStart’
    mainRTOFsPROcModular: no visible binding for global variable ‘tEnd’
    mainRTOFsPROcModular: no visible binding for global variable
    ‘align2Training’
    mainRTOFsPROcModular: no visible binding for global variable
    ‘aplTrainFileName’
    mainRTOFsPROcModular: no visible binding for global variable ‘aplTrain’
    mainRTOFsPROcModular: no visible binding for global variable ‘maxShift’
    mainRTOFsPROcModular: no visible binding for global variable
    ‘alPeakDomain’
    mainRTOFsPROcModular: no visible binding for global variable ‘save4Mlb’
  • checking Rd files ... NOTE
    prepare_Rd: mainRTOFsPROcModular.Rd:98: Dropping empty section \seealso
  • 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 examples ... [40s/56s] OK
  • checking PDF version of manual ... OK
    WARNING: There was 1 warning.
    NOTE: There were 2 notes.
    See
    ‘/data/gannet/tmp/ripley/R/packages/tests-devel/rTOFsPRO.Rcheck/00check.log’
    for details.