* using log directory 'd:/Rcompile/CRANpkg/local/2.9/BootCL.Rcheck'
* using R version 2.9.2 (2009-08-24)
* using session charset: ISO8859-1
* checking for file 'BootCL/DESCRIPTION' ... OK
* this is package 'BootCL' version '1.7'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'BootCL' can be installed ... WARNING
Found the following significant warnings:
  Warning: invalid whitespace before brace in file 'BootCL.print.Rd' at ' \item{affyID.flag} {if affyIDs are used for sample, affyID.flag=TRUE. Else if Accession IDs are used , affyID.flag=FALSE}'
  Warning: invalid whitespace before brace in file 'BootCL.print.Rd' at ' \item{affyID.flag} {if affyIDs are used for sample, affyID.flag=TRUE. Else if Accession IDs are used , affyID.flag=FALSE}'
  Warning: invalid whitespace before brace in file 'find.ID.Rd' at ' \item{affyID.flag} {if affyIDs are used for sample, affyID.flag=TRUE. Else if Accession IDs are used , affyID.flag=FALSE}'
  Warning: invalid whitespace before brace in file 'find.ID.Rd' at '\item{Access.list} {Accession IDs}'
  Warning: invalid whitespace before brace in file 'find.ID.Rd' at ' \item{affyID.flag} {if affyIDs are used for sample, affyID.flag=TRUE. Else if Accession IDs are used , affyID.flag=FALSE}'
  Warning: invalid whitespace before brace in file 'find.ID.Rd' at '\item{Access.list} {Accession IDs}'
See 'd:/Rcompile/CRANpkg/local/2.9/BootCL.Rcheck/00install.out' for details.
* checking package directory ... OK
* checking for portable file names ... 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 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
BootCL.Statistic: no visible binding for global variable 'HG.U133A'
BootCL.Statistic: no visible binding for global variable 'HG.U133B'
BootCL.Statistic: no visible binding for global variable 'MG.U74Av2'
BootCL.Statistic: no visible binding for global variable 'MG.U74Bv2'
BootCL.Statistic: no visible binding for global variable 'MG.U74Cv2'
BootCL.Statistic: no visible binding for global variable 'RG.U34A'
BootCL.Statistic: no visible binding for global variable 'RG.U34B'
BootCL.Statistic: no visible binding for global variable 'RG.U34C'
BootCL.Statistic: no visible binding for global variable 'Hgfocus'
BootCL.Statistic: no visible binding for global variable 'Hgu133plus2'
BootCL.Statistic: no visible binding for global variable 'Hgu133A2'
BootCL.Statistic: no visible binding for global variable 'Mouse4302'
BootCL.Statistic: no visible binding for global variable 'Mouse430A2'
BootCL.Statistic: no visible binding for global variable 'hwgcod'
BootCL.Statistic: no visible binding for global variable 'mwgcod'
BootCL.Statistic: no visible binding for global variable 'rwgcod'
BootCL.Statistic: no visible binding for global variable 'hgug4112a'
BootCL.Statistic: no visible binding for global variable 'hgug4110b'
BootCL.Statistic: no visible binding for global variable 'mgug4122a'
BootCL.Statistic: no visible binding for global variable 'chickenChip'
BootCL.Statistic: no visible binding for global variable
  'total.count.ws'
BootCL.distribution: no visible binding for global variable 'HG.U133A'
BootCL.distribution: no visible binding for global variable 'HG.U133B'
BootCL.distribution: no visible binding for global variable 'MG.U74Av2'
BootCL.distribution: no visible binding for global variable 'MG.U74Bv2'
BootCL.distribution: no visible binding for global variable 'MG.U74Cv2'
BootCL.distribution: no visible binding for global variable 'RG.U34A'
BootCL.distribution: no visible binding for global variable 'RG.U34B'
BootCL.distribution: no visible binding for global variable 'RG.U34C'
BootCL.distribution: no visible binding for global variable 'Hgfocus'
BootCL.distribution: no visible binding for global variable
  'Hgu133plus2'
BootCL.distribution: no visible binding for global variable 'Hgu133A2'
BootCL.distribution: no visible binding for global variable 'Mouse4302'
BootCL.distribution: no visible binding for global variable
  'Mouse430A2'
BootCL.distribution: no visible binding for global variable 'hwgcod'
BootCL.distribution: no visible binding for global variable 'mwgcod'
BootCL.distribution: no visible binding for global variable 'rwgcod'
BootCL.distribution: no visible binding for global variable 'hgug4112a'
BootCL.distribution: no visible binding for global variable 'hgug4110b'
BootCL.distribution: no visible binding for global variable 'mgug4122a'
BootCL.distribution: no visible binding for global variable
  'chickenChip'
BootCL.distribution: no visible binding for global variable
  'total.count.ws'
find.ID: no visible binding for global variable 'affy.hgu133a'
find.ID: no visible binding for global variable 'HG.U133A'
find.ID: no visible binding for global variable 'affy.hgu133b'
find.ID: no visible binding for global variable 'HG.U133B'
find.ID: no visible binding for global variable 'affy.mgu74av2'
find.ID: no visible binding for global variable 'MG.U74Av2'
find.ID: no visible binding for global variable 'affy.mgu74bv2'
find.ID: no visible binding for global variable 'MG.U74Bv2'
find.ID: no visible binding for global variable 'affy.mgu74cv2'
find.ID: no visible binding for global variable 'MG.U74Cv2'
find.ID: no visible binding for global variable 'affy.rgu34a'
find.ID: no visible binding for global variable 'RG.U34A'
find.ID: no visible binding for global variable 'affy.rgu34b'
find.ID: no visible binding for global variable 'RG.U34B'
find.ID: no visible binding for global variable 'affy.rgu34c'
find.ID: no visible binding for global variable 'RG.U34C'
find.ID: no visible binding for global variable 'affy.hgfocus'
find.ID: no visible binding for global variable 'Hgfocus'
find.ID: no visible binding for global variable 'affy.hgu133plus2'
find.ID: no visible binding for global variable 'Hgu133plus2'
find.ID: no visible binding for global variable 'affy.hgu133a2'
find.ID: no visible binding for global variable 'Hgu133A2'
find.ID: no visible binding for global variable 'affy.mouse4302'
find.ID: no visible binding for global variable 'Mouse4302'
find.ID: no visible binding for global variable 'affy.mouse430a2'
find.ID: no visible binding for global variable 'Mouse430A2'
find.ID: no visible binding for global variable 'codelink.hwgcod'
find.ID: no visible binding for global variable 'hwgcod'
find.ID: no visible binding for global variable 'codelink.mwgcod'
find.ID: no visible binding for global variable 'mwgcod'
find.ID: no visible binding for global variable 'codelink.rwgcod'
find.ID: no visible binding for global variable 'rwgcod'
find.ID: no visible binding for global variable 'agilent.hgug4112a'
find.ID: no visible binding for global variable 'hgug4112a'
find.ID: no visible binding for global variable 'agilent.hgug4110b'
find.ID: no visible binding for global variable 'hgug4110b'
find.ID: no visible binding for global variable 'agilent.mgug4122a'
find.ID: no visible binding for global variable 'mgug4122a'
find.ID: no visible binding for global variable 'affy.chickenChip'
find.ID: no visible binding for global variable 'chickenChip'
* checking Rd files ... OK
* checking Rd files against version 2 parser ... WARNING
Warning in parse_Rd("./man/BootCL.print.Rd", encoding = "unknown") :
  bad markup (extra space?) at BootCL.print.Rd:15:21
Warning: ./man/BootCL.print.Rd:15: Unnecessary braces at '{if affyIDs are used for sample, affyID.flag=TRUE. Else if Accession IDs are used , affyID.flag=FALSE}'
Warning in parse_Rd("./man/find.ID.Rd", encoding = "unknown") :
  bad markup (extra space?) at find.ID.Rd:13:21
Warning in parse_Rd("./man/find.ID.Rd", encoding = "unknown") :
  bad markup (extra space?) at find.ID.Rd:16:21
Warning: ./man/find.ID.Rd:13: Unnecessary braces at '{if affyIDs are used for sample, affyID.flag=TRUE. Else if Accession IDs are used , affyID.flag=FALSE}'
Warning: ./man/find.ID.Rd:16: Unnecessary braces at '{Accession IDs}'
* 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 PDF version of manual ... OK