* using log directory 'd:/Rcompile/CRANpkg/local/2.15/MSToolkit.Rcheck'
* using R version 2.15.0 (2012-03-30)
* using platform: x86_64-pc-mingw32 (64-bit)
* using session charset: ISO8859-1
* checking for file 'MSToolkit/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'MSToolkit' version '2.0'
* checking package namespace information ... OK
* checking package dependencies ... NOTE
Package suggested but not available for checking: 'Rlsf'
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking whether package 'MSToolkit' can be installed ... OK
* checking installed package size ... OK
* 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
* 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 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
File 'MSToolkit/R/zzz.R':
  .onAttach calls:
    cat(copyright, sep = "\n")
    cat("#########################################################\n")
    cat("#                                          Unit tests    #\n")
    cat("# > mstoolkitUnitTests( )                                #\n")
    cat("##########################################################\n")
    cat("################################################################################\n")
    cat("# You are running the package from a grid node. To take advantage of it, use   #\n")
    cat("# the grid argument in ?analyzeData                                            #\n")
    cat("################################################################################\n")

Package startup functions should use 'packageStartupMessage' to
  generate messages.
See section 'Good practice' in ?.onAttach.

.checkReplicates: warning in dir("ReplicateData", pattern =
  "[0-9]{4}\\.csv$", full = TRUE): partial argument match of 'full' to
  'full.names'
.ectdSubmit: no visible global function definition for 'Sys.putenv'
.onAttach: warning in .packages(all = TRUE): partial argument match of
  'all' to 'all.available'
analyzeData: no visible binding for global variable 'lsf.job.status'
analyzeRep: warning in performAnalysis(analysisCode, seed = seed, data
  = idata, software = software, subset = intSubset, dataChanges =
  dataChanges, doses = doses, infile = infile): partial argument match
  of 'subset' to 'subset.'
checkSymmetricPDMatrix: warning in eigen(mat, sym = TRUE, EISPACK =
  TRUE, only.values = TRUE): partial argument match of 'sym' to
  'symmetric'
createContinuousCovariates: no visible binding for global variable
  'nSubjects'
createDiscreteCovariates: no visible binding for global variable
  'nSubjects'
createExternalCovariates: no visible binding for global variable
  'nSubjects'
createExternalParameters: no visible binding for global variable
  'nSubjects'
createInterims: no visible binding for global variable 'nSubjects'
createNormalParameters: no visible binding for global variable
  'nSubjects'
createResponse: no visible global function definition for 'ectdstop'
ectdDateFormat: warning in get("dateFormat", env = .ectdEnv): partial
  argument match of 'env' to 'envir'
ectdDateFormat: warning in assign("dateFormat", format, env =
  .ectdEnv): partial argument match of 'env' to 'envir'
ectdLogFile: warning in get("logfile", env = .ectdEnv): partial
  argument match of 'env' to 'envir'
ectdLogFile: warning in assign("logfile", file, env = .ectdEnv):
  partial argument match of 'env' to 'envir'
ectdVerbose: warning in get("verbose", env = .ectdEnv): partial
  argument match of 'env' to 'envir'
ectdVerbose: warning in assign("verbose", verbose, env = .ectdEnv):
  partial argument match of 'env' to 'envir'
mstoolkitUnitTests: no visible binding for global variable
  'unitTestPath'
mstoolkitUnitTests: no visible binding for global variable
  'systemTestPath'
validNames : <anonymous>: no visible binding for global variable '..nm'
Found .Internal calls in the following functions:
  'ectdStop' 'ectdWarning'
with calls to .Internal functions
  '.dfltWarn' '.signalCondition' 'stop' 'warning'

Packages should not call .Internal(): it is not part of the API, for
use only by R itself and subject to change without notice.
* 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 examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... OK
* checking for unstated dependencies in tests ... OK
* checking tests ...
** running tests for arch 'i386' OK
  Running 'doRUnit.R'
** running tests for arch 'x64' OK
  Running 'doRUnit.R'
* checking PDF version of manual ... OK
NOTE: There were 2 notes.
See
  'd:/Rcompile/CRANpkg/local/2.15/MSToolkit.Rcheck/00check.log'
for details.