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This page was generated on 2021-11-30 13:55:05 -0500 (Tue, 30 Nov 2021).

INSTALL results for PDATK on riesling1

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raw results

Package 1377/2068HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
PDATK 1.3.0  (landing page)
Benjamin Haibe-Kains
Snapshot Date: 2021-11-29 14:50:17 -0500 (Mon, 29 Nov 2021)
git_url: https://git.bioconductor.org/packages/PDATK
git_branch: master
git_last_commit: acec60e
git_last_commit_date: 2021-10-26 13:07:20 -0500 (Tue, 26 Oct 2021)
nebbiolo1Linux (Ubuntu 20.04.3 LTS) / x86_64  OK    ERROR  skipped
riesling1Windows Server 2019 Standard / x64  OK    ERROR  skippedskipped
merida1macOS 10.14.6 Mojave / x86_64  OK    ERROR  skippedskipped

Summary

Package: PDATK
Version: 1.3.0
Command: C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.15/bioc/src/contrib/PDATK_1.3.0.tar.gz && rm -rf PDATK.buildbin-libdir && mkdir PDATK.buildbin-libdir && D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=PDATK.buildbin-libdir PDATK_1.3.0.tar.gz && D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL PDATK_1.3.0.zip && rm PDATK_1.3.0.tar.gz PDATK_1.3.0.zip
StartedAt: 2021-11-29 19:49:41 -0500 (Mon, 29 Nov 2021)
EndedAt: 2021-11-29 19:50:15 -0500 (Mon, 29 Nov 2021)
EllapsedTime: 34.0 seconds
RetCode: 0
Status:   OK  

Command output

##############################################################################
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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.15/bioc/src/contrib/PDATK_1.3.0.tar.gz && rm -rf PDATK.buildbin-libdir && mkdir PDATK.buildbin-libdir && D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=PDATK.buildbin-libdir PDATK_1.3.0.tar.gz && D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL PDATK_1.3.0.zip && rm PDATK_1.3.0.tar.gz PDATK_1.3.0.zip
###
##############################################################################
##############################################################################


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only one architecture so ignoring '--merge-multiarch'
* 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
* MD5 sums
packaged installation of 'PDATK' as PDATK_1.3.0.zip
* DONE (PDATK)
* installing to library 'D:/biocbuild/bbs-3.15-bioc/R/library'
package 'PDATK' successfully unpacked and MD5 sums checked