CRAN Package Check Results for Package SuperLearner

Last updated on 2015-08-04 19:50:51.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 2.0-15 0.76 20.50 21.25 NOTE
r-devel-linux-x86_64-debian-gcc 2.0-15 0.72 19.79 20.51 NOTE
r-devel-linux-x86_64-fedora-clang 2.0-15 39.64 NOTE
r-devel-linux-x86_64-fedora-gcc 2.0-15 37.14 NOTE
r-devel-osx-x86_64-clang 2.0-15 36.22 NOTE
r-devel-windows-ix86+x86_64 2.0-15 5.00 33.00 38.00 NOTE
r-patched-linux-x86_64 2.0-15 0.95 19.08 20.03 NOTE
r-patched-solaris-sparc 2.0-15 247.00 NOTE
r-patched-solaris-x86 2.0-15 53.60 NOTE
r-release-linux-x86_64 2.0-15 0.82 20.34 21.16 NOTE
r-release-osx-x86_64-mavericks 2.0-15 NOTE
r-release-windows-ix86+x86_64 2.0-15 5.00 34.00 39.00 NOTE
r-oldrel-windows-ix86+x86_64 2.0-15 6.00 43.00 49.00 NOTE

Check Details

Version: 2.0-15
Check: dependencies in R code
Result: NOTE
    'library' or 'require' calls in package code:
     ‘ROCR’ ‘cvAUC’
     Please use :: or requireNamespace() instead.
     See section 'Suggested packages' 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-osx-x86_64-clang, 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, r-oldrel-windows-ix86+x86_64

Version: 2.0-15
Check: S3 generic/method consistency
Result: NOTE
    Found the following apparent S3 methods exported but not registered:
     predict.SL.bayesglm predict.SL.caret predict.SL.cforest
     predict.SL.earth predict.SL.gam predict.SL.gbm predict.SL.glm
     predict.SL.glmnet predict.SL.ipredbagg predict.SL.knn
     predict.SL.leekasso predict.SL.loess predict.SL.logreg
     predict.SL.mean predict.SL.nnet predict.SL.polymars
     predict.SL.randomForest predict.SL.ridge predict.SL.rpart
     predict.SL.step predict.SL.stepAIC predict.SL.svm predict.SL.template
     print.summary.CV.SuperLearner
    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-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-osx-x86_64-clang, r-patched-linux-x86_64, r-patched-solaris-sparc, r-patched-solaris-x86, r-release-linux-x86_64

Version: 2.0-15
Check: R code for possible problems
Result: NOTE
    CV.SuperLearner: no visible global function definition for ‘gaussian’
    CV.SuperLearner: no visible global function definition for ‘mclapply’
    CV.SuperLearner: no visible global function definition for ‘parLapply’
    SL.bayesglm: no visible global function definition for ‘bayesglm’
    SL.caret: no visible global function definition for ‘trainControl’
    SL.cforest: no visible global function definition for ‘cforest’
    SL.cforest: no visible global function definition for
     ‘cforest_unbiased’
    SL.earth: no visible binding for global variable ‘binomial’
    SL.gam: no visible global function definition for ‘as.formula’
    SL.gbm: no visible global function definition for ‘as.formula’
    SL.gbm: no visible global function definition for ‘gbm’
    SL.gbm: no visible global function definition for ‘gbm.perf’
    SL.glm: no visible global function definition for ‘glm’
    SL.glm.interaction: no visible global function definition for ‘glm’
    SL.glmnet: no visible global function definition for ‘model.matrix’
    SL.glmnet: no visible global function definition for ‘cv.glmnet’
    SL.ipredbagg: no visible global function definition for ‘rpart.control’
    SL.ipredbagg: no visible global function definition for ‘ipredbagg’
    SL.knn: no visible global function definition for ‘knn’
    SL.leekasso: no visible global function definition for ‘f.pvalue’
    SL.leekasso: no visible global function definition for ‘lm’
    SL.leekasso: no visible global function definition for ‘predict.lm’
    SL.loess: no visible global function definition for ‘loess’
    SL.loess: no visible global function definition for ‘as.formula’
    SL.loess: no visible global function definition for ‘loess.control’
    SL.logreg: no visible global function definition for ‘logreg’
    SL.logreg: no visible global function definition for ‘var’
    SL.mean: no visible global function definition for ‘weighted.mean’
    SL.nnet: no visible global function definition for ‘nnet’
    SL.polymars: no visible global function definition for ‘polymars’
    SL.polymars: no visible global function definition for ‘polyclass’
    SL.polymars: no visible global function definition for ‘ppolyclass’
    SL.randomForest: no visible global function definition for
     ‘randomForest’
    SL.ridge: no visible global function definition for ‘lm.ridge’
    SL.rpart: no visible global function definition for ‘rpart’
    SL.rpart: no visible global function definition for ‘rpart.control’
    SL.rpartPrune: no visible global function definition for ‘rpart’
    SL.rpartPrune: no visible global function definition for
     ‘rpart.control’
    SL.rpartPrune: no visible global function definition for ‘prune’
    SL.step: no visible global function definition for ‘glm’
    SL.step: no visible global function definition for ‘step’
    SL.step.forward: no visible global function definition for ‘glm’
    SL.step.forward: no visible global function definition for ‘step’
    SL.step.forward: no visible global function definition for ‘formula’
    SL.step.interaction: no visible global function definition for ‘glm’
    SL.step.interaction: no visible global function definition for ‘step’
    SL.stepAIC: no visible global function definition for ‘glm’
    SL.stepAIC: no visible global function definition for ‘formula’
    SL.stepAIC: no visible global function definition for ‘stepAIC’
    SL.svm: no visible global function definition for ‘svm’
    SampleSplitSuperLearner: no visible global function definition for
     ‘gaussian’
    SuperLearner: no visible global function definition for ‘gaussian’
    SuperLearnerDocs: no visible global function definition for ‘RShowDoc’
    SuperLearnerNews: no visible global function definition for ‘RShowDoc’
    mcSuperLearner: no visible global function definition for ‘gaussian’
    mcSuperLearner: no visible global function definition for ‘mclapply’
    method.AUC : <anonymous> : .cvRisk_AUC: no visible global function
     definition for ‘cvAUC’
    method.AUC : <anonymous>: no visible global function definition for
     ‘optim’
    method.AUC : <anonymous> : <anonymous>: no visible global function
     definition for ‘cvAUC’
    method.CC_LS : computeCoef : compute: no visible global function
     definition for ‘solve.QP’
    method.CC_nloglik : computePred: no visible global function definition
     for ‘plogis’
    method.CC_nloglik : computeCoef : obj_and_grad : <anonymous>: no
     visible global function definition for ‘plogis’
    method.CC_nloglik : computeCoef: no visible global function definition
     for ‘nloptr’
    method.NNLS2 : <anonymous> : .NNLS: no visible global function
     definition for ‘solve.QP’
    method.NNloglik : <anonymous> : .NNloglik : fmin: no visible global
     function definition for ‘plogis’
    method.NNloglik : <anonymous> : .NNloglik : gmin: no visible global
     function definition for ‘plogis’
    method.NNloglik : <anonymous> : .NNloglik : gmin: no visible global
     function definition for ‘dlogis’
    method.NNloglik : <anonymous> : .NNloglik: no visible global function
     definition for ‘optim’
    method.NNloglik : <anonymous>: no visible global function definition
     for ‘plogis’
    plot.CV.SuperLearner: no visible global function definition for ‘qnorm’
    plot.CV.SuperLearner: no visible global function definition for
     ‘reorder’
    plot.CV.SuperLearner: no visible global function definition for
     ‘dotplot’
    plot.CV.SuperLearner : <anonymous>: no visible global function
     definition for ‘panel.xyplot’
    plot.CV.SuperLearner : <anonymous>: no visible global function
     definition for ‘panel.segments’
    plot.CV.SuperLearner: no visible global function definition for
     ‘ggplot’
    plot.CV.SuperLearner: no visible global function definition for
     ‘aes_string’
    plot.CV.SuperLearner: no visible global function definition for
     ‘geom_pointrange’
    plot.CV.SuperLearner: no visible global function definition for
     ‘coord_flip’
    plot.CV.SuperLearner: no visible global function definition for ‘ylab’
    plot.CV.SuperLearner: no visible global function definition for ‘xlab’
    predict.SL.glmnet: no visible global function definition for
     ‘model.matrix’
    predict.SL.knn: no visible global function definition for ‘knn’
    predict.SL.polymars: no visible global function definition for
     ‘ppolyclass’
    screen.SIS: no visible global function definition for ‘SIS’
    screen.corP : <anonymous>: no visible global function definition for
     ‘var’
    screen.corP : <anonymous>: no visible global function definition for
     ‘cor.test’
    screen.corRank : <anonymous>: no visible global function definition for
     ‘var’
    screen.corRank : <anonymous>: no visible global function definition for
     ‘cor.test’
    screen.glmnet: no visible global function definition for ‘model.matrix’
    screen.glmnet: no visible global function definition for ‘cv.glmnet’
    screen.randomForest: no visible global function definition for
     ‘randomForest’
    screen.ttest: no visible global function definition for ‘colttests’
    snowSuperLearner: no visible global function definition for ‘gaussian’
    snowSuperLearner: no visible global function definition for ‘parLapply’
    snowSuperLearner: no visible global function definition for ‘parSapply’
    summary.CV.SuperLearner: no visible global function definition for ‘sd’
    summary.CV.SuperLearner : <anonymous>: no visible global function
     definition for ‘sd’
    summary.CV.SuperLearner: no visible global function definition for
     ‘cvAUC’
    summary.CV.SuperLearner : <anonymous>: no visible global function
     definition for ‘cvAUC’
    Undefined global functions or variables:
     RShowDoc SIS aes_string as.formula bayesglm binomial cforest
     cforest_unbiased colttests coord_flip cor.test cv.glmnet cvAUC dlogis
     dotplot f.pvalue formula gaussian gbm gbm.perf geom_pointrange ggplot
     glm ipredbagg knn lm lm.ridge loess loess.control logreg mclapply
     model.matrix nloptr nnet optim panel.segments panel.xyplot parLapply
     parSapply plogis polyclass polymars ppolyclass predict.lm prune qnorm
     randomForest reorder rpart rpart.control sd solve.QP step stepAIC svm
     trainControl var weighted.mean xlab ylab
    Consider adding
     importFrom("stats", "as.formula", "binomial", "cor.test", "dlogis",
     "formula", "gaussian", "glm", "lm", "loess",
     "loess.control", "model.matrix", "optim", "plogis",
     "predict.lm", "qnorm", "reorder", "sd", "step", "var",
     "weighted.mean")
     importFrom("utils", "RShowDoc")
    to your NAMESPACE.
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

Version: 2.0-15
Check: R code for possible problems
Result: NOTE
    CV.SuperLearner: no visible global function definition for ‘mclapply’
    CV.SuperLearner: no visible global function definition for ‘parLapply’
    SL.bayesglm: no visible global function definition for ‘bayesglm’
    SL.caret: no visible global function definition for ‘trainControl’
    SL.cforest: no visible global function definition for ‘cforest’
    SL.cforest: no visible global function definition for
     ‘cforest_unbiased’
    SL.gbm: no visible global function definition for ‘gbm’
    SL.gbm: no visible global function definition for ‘gbm.perf’
    SL.glmnet: no visible global function definition for ‘cv.glmnet’
    SL.ipredbagg: no visible global function definition for ‘rpart.control’
    SL.ipredbagg: no visible global function definition for ‘ipredbagg’
    SL.knn: no visible global function definition for ‘knn’
    SL.leekasso: no visible global function definition for ‘f.pvalue’
    SL.logreg: no visible global function definition for ‘logreg’
    SL.nnet: no visible global function definition for ‘nnet’
    SL.polymars: no visible global function definition for ‘polymars’
    SL.polymars: no visible global function definition for ‘polyclass’
    SL.polymars: no visible global function definition for ‘ppolyclass’
    SL.randomForest: no visible global function definition for
     ‘randomForest’
    SL.ridge: no visible global function definition for ‘lm.ridge’
    SL.rpart: no visible global function definition for ‘rpart’
    SL.rpart: no visible global function definition for ‘rpart.control’
    SL.rpartPrune: no visible global function definition for ‘rpart’
    SL.rpartPrune: no visible global function definition for
     ‘rpart.control’
    SL.rpartPrune: no visible global function definition for ‘prune’
    SL.stepAIC: no visible global function definition for ‘stepAIC’
    SL.svm: no visible global function definition for ‘svm’
    mcSuperLearner: no visible global function definition for ‘mclapply’
    method.AUC : <anonymous> : .cvRisk_AUC: no visible global function
     definition for ‘cvAUC’
    method.AUC : <anonymous> : <anonymous>: no visible global function
     definition for ‘cvAUC’
    method.CC_LS : computeCoef : compute: no visible global function
     definition for ‘solve.QP’
    method.CC_nloglik : computeCoef: no visible global function definition
     for ‘nloptr’
    method.NNLS2 : <anonymous> : .NNLS: no visible global function
     definition for ‘solve.QP’
    plot.CV.SuperLearner: no visible global function definition for
     ‘dotplot’
    plot.CV.SuperLearner : <anonymous>: no visible global function
     definition for ‘panel.xyplot’
    plot.CV.SuperLearner : <anonymous>: no visible global function
     definition for ‘panel.segments’
    plot.CV.SuperLearner: no visible global function definition for
     ‘ggplot’
    plot.CV.SuperLearner: no visible global function definition for
     ‘aes_string’
    plot.CV.SuperLearner: no visible global function definition for
     ‘geom_pointrange’
    plot.CV.SuperLearner: no visible global function definition for
     ‘coord_flip’
    plot.CV.SuperLearner: no visible global function definition for ‘ylab’
    plot.CV.SuperLearner: no visible global function definition for ‘xlab’
    predict.SL.knn: no visible global function definition for ‘knn’
    predict.SL.polymars: no visible global function definition for
     ‘ppolyclass’
    screen.SIS: no visible global function definition for ‘SIS’
    screen.glmnet: no visible global function definition for ‘cv.glmnet’
    screen.randomForest: no visible global function definition for
     ‘randomForest’
    screen.ttest: no visible global function definition for ‘colttests’
    snowSuperLearner: no visible global function definition for ‘parLapply’
    snowSuperLearner: no visible global function definition for ‘parSapply’
    summary.CV.SuperLearner: no visible global function definition for
     ‘cvAUC’
    summary.CV.SuperLearner : <anonymous>: no visible global function
     definition for ‘cvAUC’
    Undefined global functions or variables:
     SIS aes_string bayesglm cforest cforest_unbiased colttests coord_flip
     cv.glmnet cvAUC dotplot f.pvalue gbm gbm.perf geom_pointrange ggplot
     ipredbagg knn lm.ridge logreg mclapply nloptr nnet panel.segments
     panel.xyplot parLapply parSapply polyclass polymars ppolyclass prune
     randomForest rpart rpart.control solve.QP stepAIC svm trainControl
     xlab ylab
Flavor: r-devel-osx-x86_64-clang

Version: 2.0-15
Check: R code for possible problems
Result: NOTE
    CV.SuperLearner: no visible global function definition for ‘mclapply’
    CV.SuperLearner: no visible global function definition for ‘parLapply’
    SL.bayesglm: no visible global function definition for ‘bayesglm’
    SL.caret: no visible global function definition for ‘trainControl’
    SL.cforest: no visible global function definition for ‘cforest’
    SL.cforest: no visible global function definition for
     ‘cforest_unbiased’
    SL.gbm: no visible global function definition for ‘gbm’
    SL.gbm: no visible global function definition for ‘gbm.perf’
    SL.glmnet: no visible global function definition for ‘cv.glmnet’
    SL.ipredbagg: no visible global function definition for ‘rpart.control’
    SL.ipredbagg: no visible global function definition for ‘ipredbagg’
    SL.knn: no visible global function definition for ‘knn’
    SL.leekasso: no visible global function definition for ‘f.pvalue’
    SL.logreg: no visible global function definition for ‘logreg’
    SL.nnet: no visible global function definition for ‘nnet’
    SL.polymars: no visible global function definition for ‘polymars’
    SL.polymars: no visible global function definition for ‘polyclass’
    SL.polymars: no visible global function definition for ‘ppolyclass’
    SL.randomForest: no visible global function definition for
     ‘randomForest’
    SL.ridge: no visible global function definition for ‘lm.ridge’
    SL.rpart: no visible global function definition for ‘rpart’
    SL.rpart: no visible global function definition for ‘rpart.control’
    SL.rpartPrune: no visible global function definition for ‘rpart’
    SL.rpartPrune: no visible global function definition for
     ‘rpart.control’
    SL.rpartPrune: no visible global function definition for ‘prune’
    SL.stepAIC: no visible global function definition for ‘stepAIC’
    SL.svm: no visible global function definition for ‘svm’
    mcSuperLearner: no visible global function definition for ‘mclapply’
    method.AUC : <anonymous> : .cvRisk_AUC: no visible global function
     definition for ‘cvAUC’
    method.AUC : <anonymous> : <anonymous>: no visible global function
     definition for ‘cvAUC’
    method.CC_LS : computeCoef : compute: no visible global function
     definition for ‘solve.QP’
    method.CC_nloglik : computeCoef: no visible global function definition
     for ‘nloptr’
    method.NNLS2 : <anonymous> : .NNLS: no visible global function
     definition for ‘solve.QP’
    plot.CV.SuperLearner: no visible global function definition for
     ‘dotplot’
    plot.CV.SuperLearner : <anonymous>: no visible global function
     definition for ‘panel.xyplot’
    plot.CV.SuperLearner : <anonymous>: no visible global function
     definition for ‘panel.segments’
    plot.CV.SuperLearner: no visible global function definition for
     ‘ggplot’
    plot.CV.SuperLearner: no visible global function definition for
     ‘aes_string’
    plot.CV.SuperLearner: no visible global function definition for
     ‘geom_pointrange’
    plot.CV.SuperLearner: no visible global function definition for
     ‘coord_flip’
    plot.CV.SuperLearner: no visible global function definition for ‘ylab’
    plot.CV.SuperLearner: no visible global function definition for ‘xlab’
    predict.SL.knn: no visible global function definition for ‘knn’
    predict.SL.polymars: no visible global function definition for
     ‘ppolyclass’
    screen.SIS: no visible global function definition for ‘SIS’
    screen.glmnet: no visible global function definition for ‘cv.glmnet’
    screen.randomForest: no visible global function definition for
     ‘randomForest’
    screen.ttest: no visible global function definition for ‘colttests’
    snowSuperLearner: no visible global function definition for ‘parLapply’
    snowSuperLearner: no visible global function definition for ‘parSapply’
    summary.CV.SuperLearner: no visible global function definition for
     ‘cvAUC’
    summary.CV.SuperLearner : <anonymous>: no visible global function
     definition for ‘cvAUC’
Flavors: 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, r-oldrel-windows-ix86+x86_64

Version: 2.0-15
Check: package dependencies
Result: NOTE
    Package suggested but not available for checking: ‘genefilter’
Flavor: r-release-osx-x86_64-mavericks