CRAN Package Check Results for Package JPSurv

Last updated on 2017-03-29 06:48:14.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.0.1 0.59 14.78 15.37 NOTE
r-devel-linux-x86_64-debian-gcc 1.0.1 0.61 14.74 15.35 NOTE
r-devel-linux-x86_64-fedora-clang 1.0.1 27.05 NOTE --no-stop-on-test-error
r-devel-linux-x86_64-fedora-gcc 1.0.1 25.45 NOTE --no-stop-on-test-error
r-devel-macos-x86_64-clang 1.0.1 22.68 NOTE --no-stop-on-test-error
r-devel-windows-ix86+x86_64 1.0.1 2.00 30.00 32.00 NOTE
r-patched-linux-x86_64 1.0.1 0.60 15.67 16.26 NOTE
r-patched-solaris-sparc 1.0.1 160.70 NOTE
r-patched-solaris-x86 1.0.1 34.50 NOTE
r-release-linux-x86_64 1.0.1 0.57 13.17 13.73 NOTE
r-release-osx-x86_64-mavericks 1.0.1 NOTE
r-release-windows-ix86+x86_64 1.0.1 2.00 31.00 33.00 NOTE
r-oldrel-windows-ix86+x86_64 1.0.1 2.00 26.00 28.00 OK

Check Details

Version: 1.0.1
Check: S3 generic/method consistency
Result: NOTE
    Found the following apparent S3 methods exported but not registered:
     plot.joinpoint predict.joinpoint print.joinpoint summary.joinpoint
    See section ‘Registering S3 methods’ in the ‘Writing R Extensions’
    manual.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-patched-linux-x86_64, r-patched-solaris-sparc, r-patched-solaris-x86, r-release-linux-x86_64

Version: 1.0.1
Check: R code for possible problems
Result: NOTE
    CoxFit : GetEstimate: no visible global function definition for ‘lm’
    CoxFit : GetEstimate: no visible global function definition for ‘vcov’
    CoxModel_Year: no visible global function definition for ‘model.frame’
    CoxModel_Year: no visible global function definition for ‘model.matrix’
    joinpoint: no visible global function definition for ‘as.formula’
    joinpoint: no visible global function definition for ‘model.frame’
    joinpoint: no visible global function definition for ‘model.matrix’
    joinpoint : plot.surv: no visible global function definition for
     ‘predict’
    joinpoint : plot.surv: no visible global function definition for ‘plot’
    joinpoint : plot.surv: no visible global function definition for
     ‘lines’
    joinpoint : plot.surv: no visible global function definition for
     ‘legend’
    read.seerstat: no visible global function definition for ‘read.table’
    Undefined global functions or variables:
     as.formula legend lines lm model.frame model.matrix plot predict
     read.table vcov
    Consider adding
     importFrom("graphics", "legend", "lines", "plot")
     importFrom("stats", "as.formula", "lm", "model.frame", "model.matrix",
     "predict", "vcov")
     importFrom("utils", "read.table")
    to your NAMESPACE file.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-sparc, r-patched-solaris-x86, r-release-linux-x86_64, r-release-osx-x86_64-mavericks, r-release-windows-ix86+x86_64

Version: 1.0.1
Check: Rd line widths
Result: NOTE
    Rd file 'aapc.Rd':
     \examples lines wider than 100 characters:
     # Fit the survival join point model with zero join points, i.e., fit the proportional hazard relative survival model.
    
    Rd file 'joinpoint.Rd':
     \examples lines wider than 100 characters:
     # Fit the survival join point model with zero join points, i.e., fit the proportional hazard relative survival model.
     fit2 = joinpoint(~Year, data=prostate, Site_and_age_for_total_stage == 18 & Sex == 1, numJPoints = 0);
    
    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-patched-linux-x86_64, r-release-linux-x86_64

Version: 1.0.1
Flags: --no-stop-on-test-error
Check: S3 generic/method consistency
Result: NOTE
    Found the following apparent S3 methods exported but not registered:
     plot.joinpoint predict.joinpoint print.joinpoint summary.joinpoint
    See section ‘Registering S3 methods’ in the ‘Writing R Extensions’
    manual.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-macos-x86_64-clang

Version: 1.0.1
Flags: --no-stop-on-test-error
Check: R code for possible problems
Result: NOTE
    CoxFit : GetEstimate: no visible global function definition for ‘lm’
    CoxFit : GetEstimate: no visible global function definition for ‘vcov’
    CoxModel_Year: no visible global function definition for ‘model.frame’
    CoxModel_Year: no visible global function definition for ‘model.matrix’
    joinpoint: no visible global function definition for ‘as.formula’
    joinpoint: no visible global function definition for ‘model.frame’
    joinpoint: no visible global function definition for ‘model.matrix’
    joinpoint : plot.surv: no visible global function definition for
     ‘predict’
    joinpoint : plot.surv: no visible global function definition for ‘plot’
    joinpoint : plot.surv: no visible global function definition for
     ‘lines’
    joinpoint : plot.surv: no visible global function definition for
     ‘legend’
    read.seerstat: no visible global function definition for ‘read.table’
    Undefined global functions or variables:
     as.formula legend lines lm model.frame model.matrix plot predict
     read.table vcov
    Consider adding
     importFrom("graphics", "legend", "lines", "plot")
     importFrom("stats", "as.formula", "lm", "model.frame", "model.matrix",
     "predict", "vcov")
     importFrom("utils", "read.table")
    to your NAMESPACE file.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-macos-x86_64-clang

Version: 1.0.1
Flags: --no-stop-on-test-error
Check: Rd line widths
Result: NOTE
    Rd file 'aapc.Rd':
     \examples lines wider than 100 characters:
     # Fit the survival join point model with zero join points, i.e., fit the proportional hazard relative survival model.
    
    Rd file 'joinpoint.Rd':
     \examples lines wider than 100 characters:
     # Fit the survival join point model with zero join points, i.e., fit the proportional hazard relative survival model.
     fit2 = joinpoint(~Year, data=prostate, Site_and_age_for_total_stage == 18 & Sex == 1, numJPoints = 0);
    
    These lines will be truncated in the PDF manual.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc