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This page was generated on 2022-01-24 13:06:44 -0500 (Mon, 24 Jan 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.2 (2021-11-01) -- "Bird Hippie" 4329
tokay2Windows Server 2012 R2 Standardx644.1.2 (2021-11-01) -- "Bird Hippie" 4080
machv2macOS 10.14.6 Mojavex86_644.1.2 (2021-11-01) -- "Bird Hippie" 4141
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

CHECK results for PDATK on tokay2


To the developers/maintainers of the PDATK package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/PDATK.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 1388/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
PDATK 1.2.0  (landing page)
Benjamin Haibe-Kains
Snapshot Date: 2022-01-23 01:55:04 -0500 (Sun, 23 Jan 2022)
git_url: https://git.bioconductor.org/packages/PDATK
git_branch: RELEASE_3_14
git_last_commit: ecf1881
git_last_commit_date: 2021-10-26 13:07:20 -0500 (Tue, 26 Oct 2021)
nebbiolo2Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: PDATK
Version: 1.2.0
Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:PDATK.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings PDATK_1.2.0.tar.gz
StartedAt: 2022-01-23 23:57:00 -0500 (Sun, 23 Jan 2022)
EndedAt: 2022-01-24 00:04:21 -0500 (Mon, 24 Jan 2022)
EllapsedTime: 440.6 seconds
RetCode: 0
Status:   OK  
CheckDir: PDATK.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:PDATK.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings PDATK_1.2.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/PDATK.Rcheck'
* using R version 4.1.2 (2021-11-01)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'PDATK/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'PDATK' version '1.2.0'
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'PDATK' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* loading checks for arch 'i386'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
* loading checks for arch 'x64'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
.calculateMSMthresholds: no visible binding for global variable
  'funContext'
.plotNetwork: no visible global function definition for 'legend'
NCSModel: no visible binding for global variable 'metric'
NCSModel: no visible binding for global variable 'comparison'
NCSModel: no visible binding for global variable 'centroid_K'
NCSModel: no visible binding for global variable 'assay_K'
NetworkCommunitySearchModel: no visible binding for global variable
  'metric'
NetworkCommunitySearchModel: no visible binding for global variable
  'comparison'
NetworkCommunitySearchModel: no visible binding for global variable
  'centroid_K'
NetworkCommunitySearchModel: no visible binding for global variable
  'assay_K'
predictClasses,ConsensusMetaclusteringModel-ANY: no visible global
  function definition for '.error'
predictClasses,NCSModel-ANY: no visible binding for global variable
  'centroid_cohort'
predictClasses,NCSModel-ANY: no visible binding for global variable
  'centroid_K'
predictClasses,NCSModel-ANY: no visible binding for global variable
  'assay_cohort'
predictClasses,NCSModel-ANY: no visible binding for global variable
  'assay_K'
predictClasses,NCSModel-ANY: no visible binding for global variable
  'tmp'
predictClasses,NCSModel-ANY: no visible binding for global variable
  'cluster_label'
rankFeatures,MultiAssayExperiment: no visible binding for global
  variable 'feature'
rankFeatures,MultiAssayExperiment: no visible binding for global
  variable 'missignAssays'
rankFeatures,MultiAssayExperiment: no visible binding for global
  variable 'feature_score'
rankFeatures,MultiAssayExperiment: no visible binding for global
  variable 'feature_rank'
trainModel,ConsensusMetaclusteringModel: no visible global function
  definition for 'pdf'
trainModel,ConsensusMetaclusteringModel: no visible global function
  definition for 'dev.off'
trainModel,NCSModel: no visible binding for global variable
  'ingroup_proportion'
trainModel,NCSModel: no visible binding for global variable
  'cor_threshold'
Undefined global functions or variables:
  .error assay_K assay_cohort centroid_K centroid_cohort cluster_label
  comparison cor_threshold dev.off feature feature_rank feature_score
  funContext ingroup_proportion legend metric missignAssays pdf tmp
Consider adding
  importFrom("grDevices", "dev.off", "pdf")
  importFrom("graphics", "legend")
to your NAMESPACE file.
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... OK
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
  Running 'testthat.R'
 OK
** running tests for arch 'x64' ...
  Running 'testthat.R'
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 NOTE
See
  'C:/Users/biocbuild/bbs-3.14-bioc/meat/PDATK.Rcheck/00check.log'
for details.



Installation output

PDATK.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/PDATK_1.2.0.tar.gz && rm -rf PDATK.buildbin-libdir && mkdir PDATK.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=PDATK.buildbin-libdir PDATK_1.2.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL PDATK_1.2.0.zip && rm PDATK_1.2.0.tar.gz PDATK_1.2.0.zip
###
##############################################################################
##############################################################################


  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100  869k  100  869k    0     0  2512k      0 --:--:-- --:--:-- --:--:-- 2520k

install for i386

* installing *source* package 'PDATK' ...
** using staged installation
** R
** data
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'PDATK'
    finding HTML links ... done
    CSPC_MAE                                html  
    ClinicalModel-class                     html  
    ClinicalModel                           html  
    CohortList-class                        html  
    CohortList                              html  
    ConsensusMetaclusteringModel-class      html  
    ConsensusMetaclusteringModel            html  
    CoxModel-class                          html  
    CoxModel                                html  
    GeneFuModel-class                       html  
    GeneFuModel                             html  
    ModelComparison-class                   html  
    ModelComparison                         html  
    NCSModel-class                          html  
    NetworkCommunitySearchModel             html  
    PCOSP-class                             html  
    PCOSP                                   html  
    PCOSP_or_ClinicalModel-class            html  
    PCOSP_or_RLS_or_RGA-class               html  
    RGAModel-class                          html  
    RLSModel-class                          html  
    RandomGeneAssignmentModel               html  
    RandomLabelShufflingModel               html  
    S4Model-class                           html  
    SurvivalExperiment-class                html  
    SurvivalExperiment                      html  
    SurvivalModel-class                     html  
    SurvivalModel                           html  
    assignColDataColumn                     html  
    assignSubtypes-CohortList-list-method   html  
    assignSubtypes-SurvivalExperiment-data.frame-method
                                            html  
    assignSubtypes                          html  
    barPlotModelComparison-ClinicalModel-PCOSP_or_RLS_or_RGA-method
                                            html  
    barPlotModelComparison                  html  
    birnbaum                                html  
    chen                                    html  
    cohortSubtypeDFs                        html  
    compareModels-ModelComparison-SurvivalModel-method
                                            html  
    compareModels-SurvivalModel-SurvivalModel-method
                                            html  
    compareModels                           html  
    densityPlotModelComparison-PCOSP_or_RLS_or_RGA-PCOSP_or_RLS_or_RGA-method
                                            html  
    densityPlotModelComparison              html  
    dot-findAllCohortPairs                  html  
    dot-randomSampleIndex                   html  
    dropNotCensored-CohortList-method       html  
    dropNotCensored-SurvivalExperiment-method
                                            html  
    dropNotCensored                         html  
    existingClassifierData                  html  
    findCommonGenes-CohortList-method       html  
    findCommonGenes-MultiAssayExperiment-method
                                            html  
    findCommonGenes                         html  
    findCommonSamples-CohortList-method     html  
    findCommonSamples                       html  
    forestPlot-ModelComparison-method       html  
    forestPlot-PCOSP_or_ClinicalModel-method
                                            html  
    forestPlot                              html  
    getModelSeed-SurvivalModel-method       html  
    getModelSeed                            html  
    getTopFeatures-MultiAssayExperiment-method
                                            html  
    getTopFeatures-PCOSP-method             html  
    getTopFeatures-SummarizedExperiment-method
                                            html  
    getTopFeatures                          html  
    haiderSigScores                         html  
    hasColDataColumns                       html  
    merge-SurvivalExperiment-SurvivalExperiment-method
                                            html  
    modelParams-S4Model-method              html  
    modelParams-set-S4Model-List_or_list_or_NULL-method
                                            html  
    modelParams-set                         html  
    modelParams                             html  
    models-S4Model-method                   html  
    models-SurvivalModel-method             html  
    models-set-S4Model-List_or_list_or_NULL-method
                                            html  
    models-set-SurvivalModel-SimpleList-method
                                            html  
    models-set                              html  
    models                                  html  
    normalize-DFrame-method                 html  
    normalize-MultiAssayExperiment-method   html  
    normalize-SummarizedExperiment-method   html  
    normalize-data.frame_or_matrix-method   html  
    normalsMAE                              html  
    optimalKMinimizeAmbiguity               html  
    plotNetworkGraph-NCSModel-method        html  
    plotNetworkGraph                        html  
    plotROC-PCOSP-method                    html  
    plotROC                                 html  
    plotSurvivalCurves-CoxModel-method      html  
    plotSurvivalCurves                      html  
    predictClasses-CohortList-ClinicalModel-method
                                            html  
    predictClasses-CohortList-GeneFuModel-method
                                            html  
    predictClasses-CohortList-PCOSP_or_RLS_or_RGA-method
                                            html  
    predictClasses-ConsensusMetaclusteringModel-ANY-method
                                            html  
    predictClasses-NCSModel-ANY-method      html  
    predictClasses-SurvivalExperiment-ClinicalModel-method
                                            html  
    predictClasses-SurvivalExperiment-GeneFuModel-method
                                            html  
    predictClasses-SurvivalExperiment-PCOSP_or_RLS_or_RGA-method
                                            html  
    predictClasses                          html  
    preprocessCaret                         html  
    rankFeatures-MultiAssayExperiment-method
                                            html  
    rankFeatures-SummarizedExperiment-method
                                            html  
    rankFeatures                            html  
    removeColDataFactorColumns              html  
    removeFactorColumns                     html  
    renameColDataColumns                    html  
    renameColumns                           html  
    runGSEA-PCOSP-data.frame-method         html  
    runGSEA                                 html  
    sampleClinicalModel                     html  
    sampleCohortList                        html  
    sampleICGCmicro                         html  
    samplePCOSPmodel                        html  
    samplePCOSPpredList                     html  
    samplePCSIsurvExp                       html  
    sampleRGAmodel                          html  
    sampleRLSmodel                          html  
    sampleTrainedPCOSPmodel                 html  
    sampleValPCOSPmodel                     html  
    show-S4Model-method                     html  
    subset-CohortList-method                html  
    trainData-S4Model-method                html  
    trainData-set-S4Model-method            html  
    trainData-set                           html  
    trainData                               html  
    trainModel-ClinicalModel-method         html  
    trainModel-ConsensusMetaclusteringModel-method
                                            html  
    trainModel-CoxModel-method              html  
    trainModel-GeneFuModel-method           html  
    trainModel-NCSModel-method              html  
    trainModel-PCOSP-method                 html  
    trainModel-RGAModel-method              html  
    trainModel-RLSModel-method              html  
    trainModel                              html  
    validateModel-ClinicalModel-CohortList-method
                                            html  
    validateModel-ClinicalModel-SurvivalExperiment-method
                                            html  
    validateModel-ConsensusMetaclusteringModel-ConsensusMetaclusteringModel-method
                                            html  
    validateModel-GeneFuModel-CohortList-method
                                            html  
    validateModel-GeneFuModel-SurvivalExperiment-method
                                            html  
    validateModel-PCOSP_or_RLS_or_RGA-CohortList-method
                                            html  
    validateModel-PCOSP_or_RLS_or_RGA-SurvivalExperiment-method
                                            html  
    validateModel                           html  
    validationData-S4Model-method           html  
    validationData-SurvivalModel-method     html  
    validationData-set-S4Model-List_or_list_or_NULL-method
                                            html  
    validationData-set-SurvivalModel-CohortList-method
                                            html  
    validationData-set                      html  
    validationData                          html  
    validationStats-S4Model-method          html  
    validationStats-SurvivalModel-method    html  
    validationStats-set-S4Model-DFrame_or_data.frame_data.table_or_NULL-method
                                            html  
    validationStats-set-SurvivalModel-data.frame-method
                                            html  
    validationStats-set                     html  
    validationStats                         html  
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path

install for x64

* installing *source* package 'PDATK' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'PDATK' as PDATK_1.2.0.zip
* DONE (PDATK)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'PDATK' successfully unpacked and MD5 sums checked

Tests output

PDATK.Rcheck/tests_i386/testthat.Rout


R version 4.1.2 (2021-11-01) -- "Bird Hippie"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: i386-w64-mingw32/i386 (32-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(testthat)
> library(PDATK)
Loading required package: SummarizedExperiment
Loading required package: MatrixGenerics
Loading required package: matrixStats

Attaching package: 'MatrixGenerics'

The following objects are masked from 'package:matrixStats':

    colAlls, colAnyNAs, colAnys, colAvgsPerRowSet, colCollapse,
    colCounts, colCummaxs, colCummins, colCumprods, colCumsums,
    colDiffs, colIQRDiffs, colIQRs, colLogSumExps, colMadDiffs,
    colMads, colMaxs, colMeans2, colMedians, colMins, colOrderStats,
    colProds, colQuantiles, colRanges, colRanks, colSdDiffs, colSds,
    colSums2, colTabulates, colVarDiffs, colVars, colWeightedMads,
    colWeightedMeans, colWeightedMedians, colWeightedSds,
    colWeightedVars, rowAlls, rowAnyNAs, rowAnys, rowAvgsPerColSet,
    rowCollapse, rowCounts, rowCummaxs, rowCummins, rowCumprods,
    rowCumsums, rowDiffs, rowIQRDiffs, rowIQRs, rowLogSumExps,
    rowMadDiffs, rowMads, rowMaxs, rowMeans2, rowMedians, rowMins,
    rowOrderStats, rowProds, rowQuantiles, rowRanges, rowRanks,
    rowSdDiffs, rowSds, rowSums2, rowTabulates, rowVarDiffs, rowVars,
    rowWeightedMads, rowWeightedMeans, rowWeightedMedians,
    rowWeightedSds, rowWeightedVars

Loading required package: GenomicRanges
Loading required package: stats4
Loading required package: BiocGenerics

Attaching package: 'BiocGenerics'

The following objects are masked from 'package:stats':

    IQR, mad, sd, var, xtabs

The following objects are masked from 'package:base':

    Filter, Find, Map, Position, Reduce, anyDuplicated, append,
    as.data.frame, basename, cbind, colnames, dirname, do.call,
    duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
    lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin,
    pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table,
    tapply, union, unique, unsplit, which.max, which.min

Loading required package: S4Vectors

Attaching package: 'S4Vectors'

The following objects are masked from 'package:base':

    I, expand.grid, unname

Loading required package: IRanges

Attaching package: 'IRanges'

The following object is masked from 'package:grDevices':

    windows

Loading required package: GenomeInfoDb
Loading required package: Biobase
Welcome to Bioconductor

    Vignettes contain introductory material; view with
    'browseVignettes()'. To cite Bioconductor, see
    'citation("Biobase")', and for packages 'citation("pkgname")'.


Attaching package: 'Biobase'

The following object is masked from 'package:MatrixGenerics':

    rowMedians

The following objects are masked from 'package:matrixStats':

    anyMissing, rowMedians

> 
> test_check("PDATK")
[ FAIL 0 | WARN 1 | SKIP 0 | PASS 77 ]

[ FAIL 0 | WARN 1 | SKIP 0 | PASS 77 ]
> 
> proc.time()
   user  system elapsed 
  28.82    1.85   30.68 

PDATK.Rcheck/tests_x64/testthat.Rout


R version 4.1.2 (2021-11-01) -- "Bird Hippie"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(testthat)
> library(PDATK)
Loading required package: SummarizedExperiment
Loading required package: MatrixGenerics
Loading required package: matrixStats

Attaching package: 'MatrixGenerics'

The following objects are masked from 'package:matrixStats':

    colAlls, colAnyNAs, colAnys, colAvgsPerRowSet, colCollapse,
    colCounts, colCummaxs, colCummins, colCumprods, colCumsums,
    colDiffs, colIQRDiffs, colIQRs, colLogSumExps, colMadDiffs,
    colMads, colMaxs, colMeans2, colMedians, colMins, colOrderStats,
    colProds, colQuantiles, colRanges, colRanks, colSdDiffs, colSds,
    colSums2, colTabulates, colVarDiffs, colVars, colWeightedMads,
    colWeightedMeans, colWeightedMedians, colWeightedSds,
    colWeightedVars, rowAlls, rowAnyNAs, rowAnys, rowAvgsPerColSet,
    rowCollapse, rowCounts, rowCummaxs, rowCummins, rowCumprods,
    rowCumsums, rowDiffs, rowIQRDiffs, rowIQRs, rowLogSumExps,
    rowMadDiffs, rowMads, rowMaxs, rowMeans2, rowMedians, rowMins,
    rowOrderStats, rowProds, rowQuantiles, rowRanges, rowRanks,
    rowSdDiffs, rowSds, rowSums2, rowTabulates, rowVarDiffs, rowVars,
    rowWeightedMads, rowWeightedMeans, rowWeightedMedians,
    rowWeightedSds, rowWeightedVars

Loading required package: GenomicRanges
Loading required package: stats4
Loading required package: BiocGenerics

Attaching package: 'BiocGenerics'

The following objects are masked from 'package:stats':

    IQR, mad, sd, var, xtabs

The following objects are masked from 'package:base':

    Filter, Find, Map, Position, Reduce, anyDuplicated, append,
    as.data.frame, basename, cbind, colnames, dirname, do.call,
    duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
    lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin,
    pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table,
    tapply, union, unique, unsplit, which.max, which.min

Loading required package: S4Vectors

Attaching package: 'S4Vectors'

The following objects are masked from 'package:base':

    I, expand.grid, unname

Loading required package: IRanges

Attaching package: 'IRanges'

The following object is masked from 'package:grDevices':

    windows

Loading required package: GenomeInfoDb
Loading required package: Biobase
Welcome to Bioconductor

    Vignettes contain introductory material; view with
    'browseVignettes()'. To cite Bioconductor, see
    'citation("Biobase")', and for packages 'citation("pkgname")'.


Attaching package: 'Biobase'

The following object is masked from 'package:MatrixGenerics':

    rowMedians

The following objects are masked from 'package:matrixStats':

    anyMissing, rowMedians

> 
> test_check("PDATK")
[ FAIL 0 | WARN 1 | SKIP 0 | PASS 77 ]

[ FAIL 0 | WARN 1 | SKIP 0 | PASS 77 ]
> 
> proc.time()
   user  system elapsed 
  25.51    0.87   26.42 

Example timings

PDATK.Rcheck/examples_i386/PDATK-Ex.timings

nameusersystemelapsed
CSPC_MAE000
ClinicalModel-class0.150.000.16
ClinicalModel0.140.000.14
CohortList0.030.000.04
ConsensusMetaclusteringModel0.020.000.01
CoxModel1.280.071.35
GeneFuModel0.140.000.14
ModelComparison2.370.262.71
PCOSP0.170.080.25
RandomGeneAssignmentModel0.210.050.25
RandomLabelShufflingModel0.090.090.19
SurvivalExperiment0.170.080.27
SurvivalModel-class0.070.000.06
SurvivalModel0.060.000.06
assignColDataColumn0.040.000.05
assignSubtypes-CohortList-list-method0.430.030.45
assignSubtypes-SurvivalExperiment-data.frame-method0.050.000.05
assignSubtypes0.040.010.05
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PDATK.Rcheck/examples_x64/PDATK-Ex.timings

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