CRAN Package Check Results for Package JM

Last updated on 2015-07-05 22:47:31.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.4-0 1.39 54.08 55.46 NOTE
r-devel-linux-x86_64-debian-gcc 1.4-0 1.42 53.64 55.07 NOTE
r-devel-linux-x86_64-fedora-clang 1.4-0 102.84 NOTE
r-devel-linux-x86_64-fedora-gcc 1.4-0 92.80 NOTE
r-devel-osx-x86_64-clang 1.4-0 92.72 OK
r-devel-windows-ix86+x86_64 1.4-0 9.00 78.00 87.00 NOTE
r-patched-linux-x86_64 1.4-0 1.46 54.62 56.07 OK
r-patched-solaris-sparc 1.4-0 591.50 OK
r-patched-solaris-x86 1.4-0 128.50 OK
r-release-linux-x86_64 1.4-0 1.48 53.84 55.32 OK
r-release-osx-x86_64-mavericks 1.4-0 OK
r-release-windows-ix86+x86_64 1.4-0 9.00 83.00 92.00 OK
r-oldrel-windows-ix86+x86_64 1.4-0 9.00 92.00 101.00 OK

Check Details

Version: 1.4-0
Check: R code for possible problems
Result: NOTE
    LogLik.phGH: no visible global function definition for ‘dnorm’
    LogLik.piecewiseGH: no visible global function definition for ‘relist’
    LogLik.piecewiseGH: no visible global function definition for ‘dnorm’
    LogLik.splineGH: no visible global function definition for ‘relist’
    LogLik.splineGH: no visible global function definition for ‘dnorm’
    LogLik.weibullAFTGH: no visible global function definition for ‘relist’
    LogLik.weibullAFTGH: no visible global function definition for ‘dnorm’
    LogLik.weibullGH: no visible global function definition for ‘relist’
    LogLik.weibullGH: no visible global function definition for ‘dnorm’
    MI.fixed.times: no visible global function definition for ‘model.frame’
    MI.fixed.times: no visible global function definition for
     ‘model.matrix’
    MI.fixed.times: no visible global function definition for
     ‘as.relistable’
    MI.fixed.times: no visible global function definition for ‘vcov’
    MI.fixed.times: no visible global function definition for ‘relist’
    MI.fixed.times: no visible global function definition for ‘runif’
    MI.fixed.times: no visible global function definition for ‘rnorm’
    MI.fixed.times: no visible binding for global variable ‘var’
    MI.random.times: no visible global function definition for
     ‘as.relistable’
    MI.random.times: no visible global function definition for ‘vcov’
    MI.random.times: no visible global function definition for ‘relist’
    MI.random.times: no visible global function definition for ‘runif’
    MI.random.times: no visible global function definition for ‘rgamma’
    MI.random.times: no visible global function definition for
     ‘model.frame’
    MI.random.times: no visible global function definition for
     ‘model.matrix’
    MI.random.times: no visible global function definition for ‘formula’
    MI.random.times: no visible global function definition for ‘rweibull’
    MI.random.times: no visible global function definition for ‘rnorm’
    ModelMats: no visible binding for global variable ‘lag’
    ModelMats: no visible global function definition for ‘model.frame’
    ModelMats: no visible global function definition for ‘delete.response’
    ModelMats: no visible global function definition for ‘model.matrix’
    Score.phGH: no visible global function definition for ‘dnorm’
    Score.piecewiseGH: no visible global function definition for ‘relist’
    Score.piecewiseGH: no visible global function definition for ‘dnorm’
    Score.splineGH: no visible global function definition for ‘relist’
    Score.splineGH: no visible global function definition for ‘dnorm’
    Score.weibullAFTGH: no visible global function definition for ‘relist’
    Score.weibullAFTGH: no visible global function definition for ‘dnorm’
    Score.weibullGH: no visible global function definition for ‘relist’
    Score.weibullGH: no visible global function definition for ‘dnorm’
    anova.jointModel: no visible global function definition for ‘logLik’
    anova.jointModel: no visible global function definition for ‘AIC’
    anova.jointModel: no visible global function definition for ‘pchisq’
    anova.jointModel : f: no visible global function definition for
     ‘pchisq’
    anova.jointModel: no visible global function definition for ‘vcov’
    anova.jointModel: no visible global function definition for
     ‘delete.response’
    anova.jointModel: no visible global function definition for ‘head’
    aucJM.coxph: no visible global function definition for ‘model.response’
    aucJM.coxph: no visible global function definition for ‘model.frame’
    aucJM.coxph: no visible global function definition for ‘combn’
    aucJM.jointModel: no visible global function definition for
     ‘model.response’
    aucJM.jointModel: no visible global function definition for
     ‘model.frame’
    aucJM.jointModel: no visible global function definition for ‘combn’
    confint.jointModel: no visible global function definition for ‘qnorm’
    confint.jointModel: no visible global function definition for ‘vcov’
    cumHaz: no visible global function definition for ‘reformulate’
    cumHaz: no visible global function definition for ‘delete.response’
    cumHaz: no visible binding for global variable ‘tail’
    cumHaz: no visible global function definition for ‘model.frame’
    cumHaz: no visible global function definition for ‘model.matrix’
    dataLM: no visible binding for global variable ‘tail’
    dataLM : <anonymous>: no visible global function definition for ‘tail’
    dmvnorm: no visible global function definition for ‘dnorm’
    dynCJM.coxph: no visible global function definition for
     ‘model.response’
    dynCJM.coxph: no visible global function definition for ‘model.frame’
    dynCJM.coxph: no visible global function definition for ‘as.formula’
    dynCJM.coxph: no visible global function definition for ‘formula’
    dynCJM.jointModel: no visible global function definition for
     ‘model.response’
    dynCJM.jointModel: no visible global function definition for
     ‘model.frame’
    fitted.jointModel: no visible global function definition for
     ‘model.frame’
    fitted.jointModel: no visible global function definition for
     ‘model.matrix’
    flexCPH: no visible global function definition for ‘terms’
    flexCPH: no visible global function definition for ‘model.extract’
    flexCPH: no visible global function definition for ‘model.matrix’
    flexCPH.fit: no visible global function definition for ‘quantile’
    flexCPH.fit: no visible global function definition for ‘optim’
    fn: no visible global function definition for ‘dnorm’
    fn: no visible binding for global variable ‘D’
    gr: no visible binding for global variable ‘D’
    gr.survAFTWB: no visible global function definition for ‘relist’
    gr.survPC: no visible global function definition for ‘relist’
    gr.survSplinePH: no visible global function definition for ‘relist’
    gr.survWB: no visible global function definition for ‘relist’
    initial.surv: no visible binding for global variable ‘tail’
    initial.surv: no visible global function definition for ‘ave’
    initial.surv: no visible global function definition for ‘as.formula’
    initial.surv: no visible global function definition for ‘lm.fit’
    initial.surv: no visible global function definition for ‘coef’
    initial.surv: no visible global function definition for ‘quantile’
    initial.survOld: no visible global function definition for ‘ave’
    initial.survOld: no visible global function definition for ‘coef’
    initial.survOld: no visible global function definition for ‘glm’
    initial.survOld: no visible binding for global variable ‘poisson’
    initial.survOld: no visible global function definition for ‘lm.fit’
    initial.survOld: no visible global function definition for ‘quantile’
    jointModel: no visible global function definition for ‘formula’
    jointModel: no visible global function definition for ‘model.matrix’
    jointModel: no visible global function definition for ‘complete.cases’
    jointModel: no visible global function definition for ‘model.frame’
    jointModel: no visible global function definition for ‘terms’
    jointModel: no visible global function definition for ‘model.response’
    jointModel: no visible global function definition for ‘tail’
    jointModel: no visible global function definition for ‘head’
    jointModel: no visible global function definition for ‘quantile’
    jointModel : <anonymous>: no visible global function definition for
     ‘tail’
    jointModel : <anonymous>: no visible global function definition for
     ‘head’
    jointModel : <anonymous>: no visible global function definition for
     ‘quantile’
    log.posterior.b: no visible global function definition for ‘dnorm’
    log.posterior.b2 : ff: no visible global function definition for
     ‘dnorm’
    log.posterior.b2: no visible global function definition for ‘optim’
    opt.longAFTWB: no visible global function definition for ‘dnorm’
    opt.longPC: no visible global function definition for ‘dnorm’
    opt.longPH: no visible global function definition for ‘dnorm’
    opt.longSplinePH: no visible global function definition for ‘dnorm’
    opt.longWB: no visible global function definition for ‘dnorm’
    opt.survAFTWB: no visible global function definition for ‘relist’
    opt.survPC: no visible global function definition for ‘relist’
    opt.survSplinePH: no visible global function definition for ‘relist’
    opt.survWB: no visible global function definition for ‘relist’
    phGH.fit: no visible global function definition for ‘dnorm’
    piecewiseAFTGH.fit: no visible global function definition for ‘dnorm’
    piecewiseAFTGH.fit: no visible global function definition for ‘optim’
    piecewiseAFTGH.fit: no visible global function definition for ‘nlminb’
    piecewiseExp.ph: no visible global function definition for ‘quantile’
    piecewiseExp.ph: no visible global function definition for ‘glm’
    piecewiseExp.ph: no visible binding for global variable ‘poisson’
    piecewisePHGH.fit: no visible global function definition for ‘dnorm’
    piecewisePHGH.fit: no visible global function definition for
     ‘as.relistable’
    piecewisePHGH.fit: no visible global function definition for ‘optim’
    piecewisePHGH.fit: no visible global function definition for ‘relist’
    piecewisePHGH.fit: no visible global function definition for ‘nlminb’
    plot.flexCPH: no visible global function definition for ‘plot’
    plot.jointModel: no visible global function definition for ‘par’
    plot.jointModel: no visible global function definition for
     ‘dev.interactive’
    plot.jointModel: no visible global function definition for
     ‘model.frame’
    plot.jointModel: no visible global function definition for
     ‘model.matrix’
    plot.jointModel: no visible global function definition for ‘fitted’
    plot.jointModel: no visible global function definition for ‘residuals’
    plot.jointModel: no visible global function definition for ‘plot’
    plot.jointModel: no visible global function definition for ‘abline’
    plot.jointModel: no visible global function definition for
     ‘panel.smooth’
    plot.jointModel: no visible global function definition for ‘mtext’
    plot.jointModel: no visible global function definition for ‘qqnorm’
    plot.jointModel: no visible global function definition for ‘qqline’
    plot.jointModel: no visible global function definition for ‘matlines’
    plot.jointModel: no visible global function definition for ‘matplot’
    plot.rocJM: no visible global function definition for ‘par’
    plot.rocJM: no visible global function definition for ‘matplot’
    plot.rocJM: no visible global function definition for ‘abline’
    plot.rocJM: no visible global function definition for ‘mtext’
    plot.survfitJM: no visible global function definition for ‘par’
    plot.survfitJM: no visible global function definition for ‘matplot’
    plot.survfitJM: no visible global function definition for ‘polygon’
    plot.survfitJM: no visible global function definition for ‘matlines’
    plot.survfitJM: no visible global function definition for ‘plot’
    plot.survfitJM: no visible global function definition for ‘lines’
    plot.survfitJM: no visible global function definition for ‘abline’
    plot.survfitJM: no visible global function definition for ‘axis’
    plot.survfitJM: no visible global function definition for ‘mtext’
    posterior.b: no visible global function definition for ‘dnorm’
    posterior.b: no visible binding for global variable ‘D’
    prederrJM.coxph: no visible global function definition for
     ‘model.response’
    prederrJM.coxph: no visible global function definition for
     ‘model.frame’
    prederrJM.jointModel: no visible global function definition for
     ‘model.response’
    prederrJM.jointModel: no visible global function definition for
     ‘model.frame’
    predict.b: no visible global function definition for ‘dnorm’
    predict.jointModel: no visible global function definition for
     ‘delete.response’
    predict.jointModel: no visible global function definition for
     ‘model.frame’
    predict.jointModel: no visible global function definition for
     ‘reformulate’
    predict.jointModel: no visible global function definition for
     ‘model.matrix’
    predict.jointModel: no visible global function definition for ‘vcov’
    predict.jointModel: no visible global function definition for ‘head’
    predict.jointModel: no visible global function definition for ‘qnorm’
    predict.jointModel: no visible global function definition for
     ‘model.response’
    predict.jointModel: no visible global function definition for
     ‘drop.terms’
    predict.jointModel: no visible binding for global variable ‘tail’
    predict.jointModel : <anonymous>: no visible global function definition
     for ‘mad’
    predict.jointModel: no visible global function definition for
     ‘as.relistable’
    predict.jointModel: no visible global function definition for ‘optim’
    predict.jointModel: no visible global function definition for ‘relist’
    predict.jointModel: no visible global function definition for ‘runif’
    predict.jointModel: no visible global function definition for ‘rnorm’
    predict.jointModel : <anonymous>: no visible binding for global
     variable ‘sd’
    predict.jointModel : <anonymous>: no visible global function definition
     for ‘sd’
    predict.jointModel : f1: no visible binding for global variable
     ‘quantile’
    predict.jointModel : f2: no visible binding for global variable
     ‘quantile’
    print.jointModel: no visible global function definition for ‘cov2cor’
    print.rocJM: no visible global function definition for ‘tail’
    print.summary.jointModel: no visible global function definition for
     ‘cov2cor’
    residuals.jointModel: no visible global function definition for ‘ave’
    residuals.jointModel: no visible global function definition for
     ‘fitted’
    rmvt: no visible global function definition for ‘rchisq’
    rocJM: no visible global function definition for ‘quantile’
    rocJM: no visible global function definition for ‘delete.response’
    rocJM: no visible global function definition for ‘model.frame’
    rocJM: no visible global function definition for ‘reformulate’
    rocJM: no visible global function definition for ‘model.matrix’
    rocJM: no visible global function definition for ‘drop.terms’
    rocJM: no visible binding for global variable ‘tail’
    rocJM: no visible global function definition for ‘as.relistable’
    rocJM: no visible global function definition for ‘vcov’
    rocJM: no visible global function definition for ‘relist’
    rocJM: no visible global function definition for ‘rnorm’
    rocJM: no visible global function definition for ‘optim’
    rocJM: no visible global function definition for ‘runif’
    rocJM: no visible global function definition for ‘pnorm’
    rocJM: no visible global function definition for ‘tail’
    rocJM: no visible binding for global variable ‘sd’
    rocJM : <anonymous>: no visible global function definition for ‘cov’
    rocJM : <anonymous>: no visible global function definition for ‘tail’
    simulate.jointModel: no visible global function definition for
     ‘delete.response’
    simulate.jointModel: no visible global function definition for
     ‘reformulate’
    simulateJM: no visible global function definition for ‘runif’
    simulateJM: no visible global function definition for ‘IQR’
    simulateJM : invS : TD: no visible global function definition for
     ‘model.matrix’
    simulateJM : invS : h: no visible global function definition for
     ‘integrate’
    simulateJM : invS: no visible global function definition for
     ‘integrate’
    simulateJM: no visible global function definition for ‘model.matrix’
    simulateJM: no visible global function definition for ‘uniroot’
    simulateJM: no visible global function definition for ‘rnorm’
    splinePHGH.fit: no visible global function definition for ‘dnorm’
    splinePHGH.fit: no visible global function definition for
     ‘as.relistable’
    splinePHGH.fit: no visible global function definition for ‘optim’
    splinePHGH.fit: no visible global function definition for ‘relist’
    splinePHGH.fit: no visible global function definition for ‘nlminb’
    splinePHLaplace.fit: no visible global function definition for ‘optim’
    splinePHLaplace.fit: no visible global function definition for ‘nlminb’
    summary.flexCPH: no visible global function definition for ‘AIC’
    summary.flexCPH: no visible global function definition for ‘vcov’
    summary.flexCPH: no visible global function definition for ‘pnorm’
    summary.jointModel: no visible global function definition for ‘vcov’
    summary.jointModel: no visible global function definition for ‘pnorm’
    summary.jointModel: no visible global function definition for ‘logLik’
    summary.jointModel: no visible global function definition for ‘AIC’
    summary.weibull.frailty: no visible global function definition for
     ‘AIC’
    summary.weibull.frailty: no visible global function definition for
     ‘vcov’
    summary.weibull.frailty: no visible global function definition for
     ‘pnorm’
    survfitJM.jointModel: no visible global function definition for
     ‘model.frame’
    survfitJM.jointModel: no visible global function definition for
     ‘reformulate’
    survfitJM.jointModel: no visible global function definition for
     ‘delete.response’
    survfitJM.jointModel: no visible global function definition for
     ‘model.response’
    survfitJM.jointModel: no visible global function definition for
     ‘model.matrix’
    survfitJM.jointModel: no visible binding for global variable ‘tail’
    survfitJM.jointModel: no visible global function definition for
     ‘drop.terms’
    survfitJM.jointModel: no visible global function definition for
     ‘as.relistable’
    survfitJM.jointModel: no visible global function definition for ‘vcov’
    survfitJM.jointModel: no visible global function definition for ‘optim’
    survfitJM.jointModel: no visible global function definition for
     ‘relist’
    survfitJM.jointModel: no visible global function definition for ‘runif’
    survfitJM.jointModel: no visible binding for global variable ‘median’
    survfitJM.jointModel: no visible binding for global variable ‘quantile’
    update.logLik.Laplace: no visible global function definition for
     ‘optim’
    update.logLik.Laplace: no visible global function definition for
     ‘dnorm’
    wald.strata: no visible global function definition for ‘vcov’
    wald.strata: no visible global function definition for ‘pchisq’
    weibull.frailty: no visible global function definition for ‘terms’
    weibull.frailty: no visible global function definition for
     ‘model.extract’
    weibull.frailty: no visible global function definition for ‘na.omit’
    weibull.frailty: no visible global function definition for
     ‘model.matrix’
    weibull.frailty.fit: no visible global function definition for ‘optim’
    weibull.frailty.fit: no visible global function definition for ‘nlminb’
    weibullAFTGH.fit: no visible global function definition for ‘dnorm’
    weibullAFTGH.fit: no visible global function definition for
     ‘as.relistable’
    weibullAFTGH.fit: no visible global function definition for ‘optim’
    weibullAFTGH.fit: no visible global function definition for ‘relist’
    weibullAFTGH.fit: no visible global function definition for ‘nlminb’
    weibullPHGH.fit: no visible global function definition for ‘dnorm’
    weibullPHGH.fit: no visible global function definition for
     ‘as.relistable’
    weibullPHGH.fit: no visible global function definition for ‘optim’
    weibullPHGH.fit: no visible global function definition for ‘relist’
    weibullPHGH.fit: no visible global function definition for ‘nlminb’
    xtable.jointModel: no visible global function definition for ‘vcov’
    Undefined global functions or variables:
     AIC D IQR abline as.formula as.relistable ave axis coef combn
     complete.cases cov cov2cor delete.response dev.interactive dnorm
     drop.terms fitted formula glm head integrate lag lines lm.fit logLik
     mad matlines matplot median model.extract model.frame model.matrix
     model.response mtext na.omit nlminb optim panel.smooth par pchisq
     plot pnorm poisson polygon qnorm qqline qqnorm quantile rchisq
     reformulate relist residuals rgamma rnorm runif rweibull sd tail
     terms uniroot var vcov
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