* using log directory 'd:/Rcompile/CRANpkg/local/3.4/CoxBoost.Rcheck'
* using R version 3.4.4 (2018-03-15)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* checking for file 'CoxBoost/DESCRIPTION' ... OK
* this is package 'CoxBoost' version '1.4'
* 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 'CoxBoost' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Description field: should contain one or more complete sentences.
* 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
** checking loading without being on the library search path ... OK
** checking use of S3 registration ... 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 loading without being on the library search path ... OK
** checking use of S3 registration ... OK
* checking dependencies in R code ... NOTE
'library' or 'require' calls in package code:
  'parallel' 'snowfall'
  Please use :: or requireNamespace() instead.
  See section 'Suggested packages' in the 'Writing R Extensions' manual.
Packages in Depends field not imported from:
  'Matrix' 'prodlim'
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... NOTE
Calls with DUP:
   .C("find_best01", x.double.vec, as.integer(n), as.integer(p), 
       uncens.C, as.integer(length(uncens)), as.double(actual.beta), 
       as.double(actual.risk.score), as.double(actual.linear.predictor), 
       weight.double.vec, max.nz.vec, max.1.vec, as.double(weightmat.times.risk), 
       as.double(weightmat.times.risk.sum), as.double(penalty), 
       warncount = integer(1), min.index = integer(1), min.deviance = double(1), 
       min.beta.delta = double(1), score.vec = double(p), DUP = FALSE, 
       NAOK = TRUE)
   .C("find_best", x.double.vec, as.integer(n), as.integer(p), uncens.C, 
       as.integer(length(uncens)), as.double(actual.beta), as.double(actual.risk.score), 
       as.double(actual.linear.predictor), weight.double.vec, max.nz.vec, 
       max.1.vec, as.double(weightmat.times.risk), as.double(weightmat.times.risk.sum), 
       as.double(penalty), as.integer(criterion == "pscore" || criterion == 
           "hpscore"), warncount = integer(1), min.index = integer(1), 
       min.deviance = double(1), min.beta.delta = double(1), score.vec = double(p), 
       DUP = FALSE, NAOK = TRUE)
   .C("find_best_candidate", x.double.vec, as.integer(n), as.integer(p), 
       uncens.C, as.integer(length(uncens)), as.double(actual.beta), 
       as.double(actual.risk.score), as.double(actual.linear.predictor), 
       weight.double.vec, max.nz.vec, max.1.vec, as.double(weightmat.times.risk), 
       as.double(weightmat.times.risk.sum), as.double(penalty), 
       as.integer(criterion == "pscore" || criterion == "hpscore"), 
       as.integer(presel.index - 1), as.integer(length(presel.index)), 
       warncount = integer(1), min.index = integer(1), min.deviance = double(1), 
       min.beta.delta = double(1), score.vec = double(p), DUP = FALSE, 
       NAOK = TRUE)
   .C("find_best_candidate", x.double.vec, as.integer(n), as.integer(p), 
       uncens.C, as.integer(length(uncens)), as.double(actual.beta), 
       as.double(actual.risk.score), as.double(actual.linear.predictor), 
       weight.double.vec, max.nz.vec, max.1.vec, as.double(weightmat.times.risk), 
       as.double(weightmat.times.risk.sum), as.double(penalty), 
       as.integer(criterion == "pscore"), as.integer(new.candidates - 
           1), as.integer(length(new.candidates)), warncount = integer(1), 
       min.index = integer(1), min.deviance = double(1), min.beta.delta = double(1), 
       score.vec = double(p), DUP = FALSE, NAOK = TRUE)
   .C("get_I_vec", as.double(x[subset.time.order, pen.index[I.index]]), 
       as.integer(n), as.integer(length(I.index)), as.integer(length(uncens)), 
       as.double(weightmat.times.risk), as.double(weightmat.times.risk.sum), 
       I.vec = double(length(I.index)), DUP = FALSE)
DUP is no longer supported and will be ignored.
* checking R code for possible problems ... [11s] NOTE
CoxBoost: no visible global function definition for 'Matrix'
CoxBoost: no visible binding for global variable 'sd'
CoxBoost: no visible global function definition for 'predict'
cv.CoxBoost : eval.fold: no visible global function definition for
  'predict'
cv.CoxBoost: no visible global function definition for 'mclapply'
cv.CoxBoost: no visible binding for global variable 'sd'
estimPVal: no visible global function definition for 'mclapply'
iCoxBoost: no visible global function definition for 'terms'
iCoxBoost: no visible global function definition for 'model.response'
iCoxBoost: no visible global function definition for 'model.frame'
iCoxBoost: no visible global function definition for 'model.matrix'
iCoxBoost: no visible global function definition for 'Matrix'
plot.CoxBoost: no visible global function definition for 'plot'
plot.CoxBoost: no visible global function definition for 'lines'
plot.CoxBoost: no visible global function definition for 'text'
predict.iCoxBoost: no visible global function definition for
  'model.response'
predict.iCoxBoost: no visible global function definition for
  'model.frame'
predict.iCoxBoost: no visible global function definition for
  'model.matrix'
Undefined global functions or variables:
  Matrix lines mclapply model.frame model.matrix model.response plot
  predict sd terms text
Consider adding
  importFrom("graphics", "lines", "plot", "text")
  importFrom("stats", "model.frame", "model.matrix", "model.response",
             "predict", "sd", "terms")
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 ... 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 compiled code ... OK
* checking examples ...
** running examples for arch 'i386' ... [9s] OK
** running examples for arch 'x64' ... [10s] OK
* checking PDF version of manual ... OK
* DONE
Status: 4 NOTEs