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This page was generated on 2021-10-13 15:05:42 -0400 (Wed, 13 Oct 2021).

INSTALL results for TCGAbiolinks on tokay2

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raw results

Package 1899/2041HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
TCGAbiolinks 2.20.1  (landing page)
Tiago Chedraoui Silva
Snapshot Date: 2021-10-12 04:50:13 -0400 (Tue, 12 Oct 2021)
git_url: https://git.bioconductor.org/packages/TCGAbiolinks
git_branch: RELEASE_3_13
git_last_commit: d7830c91
git_last_commit_date: 2021-10-04 16:09:51 -0400 (Mon, 04 Oct 2021)
nebbiolo1Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published

Summary

Package: TCGAbiolinks
Version: 2.20.1
Command: C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/TCGAbiolinks_2.20.1.tar.gz && rm -rf TCGAbiolinks.buildbin-libdir && mkdir TCGAbiolinks.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=TCGAbiolinks.buildbin-libdir TCGAbiolinks_2.20.1.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL TCGAbiolinks_2.20.1.zip && rm TCGAbiolinks_2.20.1.tar.gz TCGAbiolinks_2.20.1.zip
StartedAt: 2021-10-12 09:38:43 -0400 (Tue, 12 Oct 2021)
EndedAt: 2021-10-12 09:40:34 -0400 (Tue, 12 Oct 2021)
EllapsedTime: 110.7 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/3.13/bioc/src/contrib/TCGAbiolinks_2.20.1.tar.gz && rm -rf TCGAbiolinks.buildbin-libdir && mkdir TCGAbiolinks.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=TCGAbiolinks.buildbin-libdir TCGAbiolinks_2.20.1.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL TCGAbiolinks_2.20.1.zip && rm TCGAbiolinks_2.20.1.tar.gz TCGAbiolinks_2.20.1.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
 27 6491k   27 1761k    0     0  2252k      0  0:00:02 --:--:--  0:00:02 2252k
 83 6491k   83 5443k    0     0  3066k      0  0:00:02  0:00:01  0:00:01 3066k
100 6491k  100 6491k    0     0  3175k      0  0:00:02  0:00:02 --:--:-- 3177k

install for i386

* installing *source* package 'TCGAbiolinks' ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'TCGAbiolinks'
    finding HTML links ... done
    BRCA_rnaseqv2                           html  
    GDCdownload                             html  
    GDCprepare                              html  
    GDCprepare_clinic                       html  
    GDCquery                                html  
    GDCquery_ATAC_seq                       html  
    GDCquery_Maf                            html  
    GDCquery_clinic                         html  
    GeneSplitRegulon                        html  
    GenesCutID                              html  
    PCBC_stemSig                            html  
    PanCancerAtlas_subtypes                 html  
    TCGAVisualize_volcano                   html  
    TCGA_MolecularSubtype                   html  
    TCGAanalyze_Clustering                  html  
    TCGAanalyze_DEA                         html  
    TCGAanalyze_DEA_Affy                    html  
    TCGAanalyze_DMC                         html  
    TCGAanalyze_EA                          html  
    TCGAanalyze_EAcomplete                  html  
    TCGAanalyze_Filtering                   html  
    TCGAanalyze_LevelTab                    html  
    TCGAanalyze_Normalization               html  
    TCGAanalyze_Pathview                    html  
    TCGAanalyze_Preprocessing               html  
    TCGAanalyze_Stemness                    html  
    TCGAanalyze_SurvivalKM                  html  
    TCGAanalyze_analyseGRN                  html  
    TCGAanalyze_networkInference            html  
    TCGAanalyze_survival                    html  
    TCGAbatch_Correction                    html  
    TCGAbiolinks                            html  
    TCGAprepare_Affy                        html  
    TCGAquery_MatchedCoupledSampleTypes     html  
    TCGAquery_SampleTypes                   html  
    TCGAquery_recount2                      html  
    TCGAquery_subtype                       html  
    TCGAtumor_purity                        html  
    TCGAvisualize_BarPlot                   html  
    TCGAvisualize_EAbarplot                 html  
    TCGAvisualize_Heatmap                   html  
    TCGAvisualize_PCA                       html  
    TCGAvisualize_SurvivalCoxNET            html  
    TCGAvisualize_meanMethylation           html  
    TCGAvisualize_oncoprint                 html  
    TCGAvisualize_starburst                 html  
    TabSubtypesCol_merged                   html  
    Tumor.purity                            html  
    UseRaw_afterFilter                      html  
    batch.info                              html  
    bcgsc.ca_CHOL.IlluminaHiSeq_DNASeq.1.somatic.maf
                                            html  
    chol_maf                                html  
    classification                          html  
    clinBRCA                                html  
    clinical.biotab                         html  
    colDataPrepare                          html  
    dataBRCA                                html  
    dataDEGsFiltLevel                       html  
    dataREAD                                html  
    dataREAD_df                             html  
    dmc.non.parametric                      html  
    dmc.non.parametric.se                   html  
    gaiaCNVplot                             html  
    gbm.exp.harmonized                      html  
    gbm.exp.legacy                          html  
    geneInfo                                html  
    geneInfoHT                              html  
    get.GRCh.bioMart                        html  
    getAdjacencyBiogrid                     html  
    getDataCategorySummary                  html  
    getGDCInfo                              html  
    getGDCprojects                          html  
    getGistic                               html  
    getLinkedOmicsData                      html  
    getMC3MAF                               html  
    getManifest                             html  
    getNbCases                              html  
    getNbFiles                              html  
    getProjectSummary                       html  
    getResults                              html  
    getSampleFilesSummary                   html  
    getTSS                                  html  
    get_IDs                                 html  
    ggbiplot                                html  
    gliomaClassifier                        html  
    isServeOK                               html  
    matchedMetExp                           html  
    met.gbm.27k                             html  
    msi_results                             html  
    pancan2018                              html  
    splitAPICall                            html  
    tabSurvKMcompleteDEGs                   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 'TCGAbiolinks' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'TCGAbiolinks' as TCGAbiolinks_2.20.1.zip
* DONE (TCGAbiolinks)
* installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library'
package 'TCGAbiolinks' successfully unpacked and MD5 sums checked