CRAN Package Check Results for Package NestedCohort

Last updated on 2017-07-21 08:48:11.

Check Details

Version: 1.1-3
Check: DESCRIPTION meta-information
Result: NOTE
    Malformed Description field: should contain one or more complete sentences.
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-release-osx-x86_64, r-oldrel-windows-ix86+x86_64, r-oldrel-osx-x86_64

Version: 1.1-3
Check: dependencies in R code
Result: NOTE
    'library' or 'require' call to ‘MASS’ which was already attached by Depends.
     Please remove these calls from your code.
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-release-osx-x86_64, r-oldrel-windows-ix86+x86_64, r-oldrel-osx-x86_64

Version: 1.1-3
Check: R code for possible problems
Result: NOTE
    nested.coxph: no visible global function definition for ‘binomial’
    nested.coxph: no visible global function definition for ‘glm.control’
    nested.coxph: no visible global function definition for ‘terms’
    nested.coxph: no visible global function definition for ‘as.formula’
    nested.coxph: no visible global function definition for
     ‘complete.cases’
    nested.coxph: no visible global function definition for ‘glm’
    nested.coxph: no visible binding for global variable ‘na.fail’
    nested.coxph: no visible global function definition for ‘predict’
    nested.coxph: no visible binding for global variable ‘na.omit’
    nested.coxph: no visible global function definition for ‘residuals’
    nested.km: no visible global function definition for ‘binomial’
    nested.km: no visible global function definition for ‘glm.control’
    nested.km: no visible global function definition for ‘terms’
    nested.km: no visible global function definition for ‘as.formula’
    nested.km: no visible global function definition for ‘complete.cases’
    nested.km: no visible global function definition for ‘glm’
    nested.km: no visible binding for global variable ‘na.fail’
    nested.km: no visible global function definition for ‘predict’
    nested.km: no visible binding for global variable ‘na.omit’
    nested.km: no visible global function definition for ‘qnorm’
    nested.stdsurv: no visible global function definition for ‘binomial’
    nested.stdsurv: no visible global function definition for ‘glm.control’
    nested.stdsurv: no visible global function definition for ‘terms’
    nested.stdsurv: no visible global function definition for ‘as.formula’
    nested.stdsurv: no visible global function definition for
     ‘complete.cases’
    nested.stdsurv: no visible global function definition for ‘glm’
    nested.stdsurv: no visible binding for global variable ‘na.fail’
    nested.stdsurv: no visible global function definition for ‘predict’
    nested.stdsurv: no visible binding for global variable ‘na.omit’
    nested.stdsurv: no visible global function definition for ‘residuals’
    nested.stdsurv: no visible global function definition for
     ‘model.matrix’
    nested.stdsurv: no visible global function definition for ‘pdf’
    nested.stdsurv: no visible global function definition for ‘lines’
    nested.stdsurv: no visible global function definition for ‘text’
    nested.stdsurv: no visible global function definition for ‘dev.off’
    Undefined global functions or variables:
     as.formula binomial complete.cases dev.off glm glm.control lines
     model.matrix na.fail na.omit pdf predict qnorm residuals terms text
    Consider adding
     importFrom("grDevices", "dev.off", "pdf")
     importFrom("graphics", "lines", "text")
     importFrom("stats", "as.formula", "binomial", "complete.cases", "glm",
     "glm.control", "model.matrix", "na.fail", "na.omit",
     "predict", "qnorm", "residuals", "terms")
    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-release-osx-x86_64, r-oldrel-windows-ix86+x86_64, r-oldrel-osx-x86_64

Version: 1.1-3
Check: files in ‘vignettes’
Result: NOTE
    The following files look like leftovers/mistakes:
     ‘Rplots.pdf’, ‘Rplots.ps’
    Please remove them from your package.
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-release-osx-x86_64, r-oldrel-windows-ix86+x86_64, r-oldrel-osx-x86_64

Version: 1.1-3
Check: re-building of vignette outputs
Result: NOTE
    Error in re-building vignettes:
     ...
    
    Warning in coxdetails$hazard/exp(apply(coxdetails$x, 2, mean) %*% beta) :
     Recycling array of length 1 in vector-array arithmetic is deprecated.
     Use c() or as.vector() instead.
    
    Warning in ((C[exposureindex, ] - C[nexposures + 1, ]) %*% covariatesurvs) * :
     Recycling array of length 1 in array-vector arithmetic is deprecated.
     Use c() or as.vector() instead.
    
    Error in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet = quiet, :
     Running 'texi2dvi' on 'NestedCohort.tex' failed.
    LaTeX errors:
    ! LaTeX Error: File `fullpage.sty' not found.
    
    Type X to quit or <RETURN> to proceed,
    or enter new name. (Default extension: sty)
    
    ! Emergency stop.
    <read *>
    
    l.8 \usepackage
     {psfig}^^M
    ! ==> Fatal error occurred, no output PDF file produced!
    Calls: buildVignettes -> texi2pdf -> texi2dvi
    Execution halted
Flavor: r-release-osx-x86_64