CRAN Package Check Results for Package ktspair

Last updated on 2019-09-21 00:52:44 CEST.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.0 7.36 43.20 50.56 NOTE
r-devel-linux-x86_64-debian-gcc 1.0 6.71 34.90 41.61 NOTE
r-devel-linux-x86_64-fedora-clang 1.0 62.95 NOTE
r-devel-linux-x86_64-fedora-gcc 1.0 62.52 NOTE
r-devel-windows-ix86+x86_64 1.0 30.00 72.00 102.00 NOTE
r-patched-linux-x86_64 1.0 7.37 42.74 50.11 NOTE
r-patched-solaris-x86 1.0 85.20 NOTE
r-release-linux-x86_64 1.0 8.75 43.52 52.27 NOTE
r-release-windows-ix86+x86_64 1.0 18.00 104.00 122.00 NOTE
r-release-osx-x86_64 1.0 ERROR
r-oldrel-windows-ix86+x86_64 1.0 13.00 71.00 84.00 NOTE
r-oldrel-osx-x86_64 1.0 NOTE

Check Details

Version: 1.0
Check: for hidden files and directories
Result: NOTE
    Found the following hidden files and directories:
     .Rbuildindex.10034
     .Rbuildindex.31551
     .Rbuildindex.31678
     .Rbuildindex.9995
     inst/doc/.fr-hy2VZf
    These were most likely included in error. See section 'Package
    structure' in the 'Writing R Extensions' manual.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64, r-oldrel-osx-x86_64

Version: 1.0
Check: dependencies in R code
Result: NOTE
    Package in Depends field not imported from: 'Biobase'
     These packages need to be imported from (in the NAMESPACE file)
     for when this namespace is loaded but not attached.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64, r-oldrel-osx-x86_64

Version: 1.0
Check: R code for possible problems
Result: NOTE
    AUC.calc: no visible global function definition for 'median'
    ROC.graphic.ktsp: no visible global function definition for 'layout'
    ROC.graphic.ktsp: no visible global function definition for 'par'
    ROC.graphic.ktsp: no visible global function definition for 'axis'
    ROC.graphic.ktsp: no visible global function definition for 'abline'
    ROC.graphic.ktsp: no visible global function definition for 'points'
    ROC.graphic.ktsp: no visible global function definition for 'lines'
    ROC.graphic.ktsp: no visible global function definition for 'plot'
    ROC.graphic.ktsp: no visible global function definition for 'legend'
    ROC.graphic.ktsp: no visible global function definition for 'title'
    ROC.offset: no visible global function definition for 'pData'
    ROC.offset: no visible global function definition for 'exprs'
    ROC.voting: no visible global function definition for 'pData'
    ROC.voting: no visible global function definition for 'exprs'
    ROC.voting: no visible global function definition for 'predict'
    bootstrap.graphic.ktsp: no visible global function definition for
     'layout'
    bootstrap.graphic.ktsp: no visible global function definition for 'par'
    bootstrap.graphic.ktsp: no visible global function definition for
     'plot'
    bootstrap.graphic.ktsp: no visible global function definition for
     'text'
    bootstrap.graphic.ktsp: no visible global function definition for
     'points'
    bootstrap.graphic.ktsp: no visible global function definition for
     'hist'
    bootstrap.graphic.ktsp: no visible global function definition for
     'axis'
    bootstrap.ktsp: no visible global function definition for 'exprs'
    bootstrap.ktsp: no visible global function definition for
     'featureNames'
    bootstrap.ktsp: no visible global function definition for 'pData'
    cv: no visible global function definition for 'predict'
    cv2: no visible global function definition for 'predict'
    kts.pair : <anonymous>: no visible global function definition for
     'median'
    ktspcalc: no visible global function definition for 'exprs'
    ktspcalc: no visible global function definition for 'featureNames'
    ktspcalc: no visible global function definition for 'pData'
    ktspcalc2: no visible global function definition for 'exprs'
    ktspcalc2: no visible global function definition for 'featureNames'
    ktspcalc2: no visible global function definition for 'pData'
    ktspcalc2 : <anonymous>: no visible global function definition for
     'median'
    ktspcalc2 : <anonymous>: no visible global function definition for
     'na.omit'
    ktspplot: no visible global function definition for 'par'
    ktspplot: no visible global function definition for 'plot'
    ktspplot: no visible global function definition for 'mtext'
    ktspplot: no visible global function definition for 'points'
    ktspplot: no visible global function definition for 'abline'
    predict.ktsp: no visible global function definition for 'featureNames'
    predict.ktsp: no visible global function definition for 'exprs'
    summary.ktsp: no visible global function definition for 'predict'
    Undefined global functions or variables:
     abline axis exprs featureNames hist layout legend lines median mtext
     na.omit pData par plot points predict text title
    Consider adding
     importFrom("graphics", "abline", "axis", "hist", "layout", "legend",
     "lines", "mtext", "par", "plot", "points", "text", "title")
     importFrom("stats", "median", "na.omit", "predict")
    to your NAMESPACE file.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64, r-oldrel-osx-x86_64

Version: 1.0
Check: Rd line widths
Result: NOTE
    Rd file 'ROC.graphic.ktsp.Rd':
     \usage lines wider than 90 characters:
     ROC.graphic.ktsp(roc, m = 1, boxplot = TRUE, AUC = TRUE, auc.x = 0.55, auc.y = 0.25, box.col = "yellow", line.col = "red", multiple.col ... [TRUNCATED]
    
    Rd file 'ROC.offset.Rd':
     \usage lines wider than 90 characters:
     ROC.offset(dat, grp, n = 200, healthy = NULL, seed = NULL, para1 = 200, para2 = 1, mult.cutoff = FALSE, length = 40, display = FALSE, m ... [TRUNCATED]
    
    Rd file 'ROC.voting.Rd':
     \usage lines wider than 90 characters:
     ROC.voting(dat, grp, n = 200, healthy = NULL, seed = NULL, para1 = 200, para2 = 1, length = 40, display = FALSE, med = FALSE)
    
    Rd file 'bootstrap.ktsp.Rd':
     \usage lines wider than 90 characters:
     bootstrap.ktsp(dat, grp, k = NULL, seed = NULL, n = 500, length = 40, display = FALSE, med = FALSE)
    
    Rd file 'cv.Rd':
     \usage lines wider than 90 characters:
     cv(dat, grp, cross = 5, display = FALSE, length = 40, seed = NULL, med = FALSE, healthy = NULL)
    
    Rd file 'cv2.Rd':
     \usage lines wider than 90 characters:
     cv2(indice, dat, grp, cross = 5, display = FALSE, length = 40, seed = NULL, med = FALSE, healthy = NULL)
    
    Rd file 'ktspcalc.Rd':
     \usage lines wider than 90 characters:
     ktspcalc(dat, grp, k = NULL, cross = 5, performance = FALSE, healthy = NULL, seed = NULL, display = TRUE, length = 40, med = FALSE)
    
    Rd file 'ktspcalc2.Rd':
     \usage lines wider than 90 characters:
     ktspcalc2(indice, dat, grp, length = 40, cross =5, display = display, med = FALSE, performance = FALSE, seed = NULL, healthy = NULL)
    
    These lines will be truncated in the PDF manual.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-patched-linux-x86_64, r-release-linux-x86_64

Version: 1.0
Check: Rd \usage sections
Result: NOTE
    S3 methods shown with full name in documentation object 'predict.ktsp':
     'predict.ktsp'
    
    S3 methods shown with full name in documentation object 'print.ktsp':
     'print.ktsp'
    
    S3 methods shown with full name in documentation object 'summary.ktsp':
     'summary.ktsp'
    
    The \usage entries for S3 methods should use the \method markup and not
    their full name.
    See chapter 'Writing R documentation files' in the 'Writing R
    Extensions' manual.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64, r-oldrel-osx-x86_64

Version: 1.0
Check: compiled code
Result: NOTE
    File ‘ktspair/libs/ktspair.so’:
     Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’
    
    It is good practice to register native routines and to disable symbol
    search.
    
    See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc

Version: 1.0
Check: package dependencies
Result: ERROR
    Package required but not available: ‘Biobase’
    
    See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
    manual.
Flavor: r-release-osx-x86_64