Back to Multiple platform build/check report for BioC 3.10
ABCDEFGHIJKLMNOPQ[R]STUVWXYZ

INSTALL report for RTCGAToolbox on tokay1

This page was generated on 2020-04-15 12:25:01 -0400 (Wed, 15 Apr 2020).

Package 1490/1823HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
RTCGAToolbox 2.16.3
Marcel Ramos
Snapshot Date: 2020-04-14 16:46:13 -0400 (Tue, 14 Apr 2020)
URL: https://git.bioconductor.org/packages/RTCGAToolbox
Branch: RELEASE_3_10
Last Commit: 093edfc
Last Changed Date: 2020-04-09 16:32:59 -0400 (Thu, 09 Apr 2020)
malbec1 Linux (Ubuntu 18.04.4 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay1 Windows Server 2012 R2 Standard / x64 [ OK ] OK  WARNINGS  OK UNNEEDED, same version exists in internal repository
merida1 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: RTCGAToolbox
Version: 2.16.3
Command: C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.10/bioc/src/contrib/RTCGAToolbox_2.16.3.tar.gz && rm -rf RTCGAToolbox.buildbin-libdir && mkdir RTCGAToolbox.buildbin-libdir && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=RTCGAToolbox.buildbin-libdir RTCGAToolbox_2.16.3.tar.gz && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL RTCGAToolbox_2.16.3.zip && rm RTCGAToolbox_2.16.3.tar.gz RTCGAToolbox_2.16.3.zip
StartedAt: 2020-04-14 20:29:01 -0400 (Tue, 14 Apr 2020)
EndedAt: 2020-04-14 20:29:51 -0400 (Tue, 14 Apr 2020)
EllapsedTime: 49.7 seconds
RetCode: 0
Status:  OK  

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.10/bioc/src/contrib/RTCGAToolbox_2.16.3.tar.gz && rm -rf RTCGAToolbox.buildbin-libdir && mkdir RTCGAToolbox.buildbin-libdir && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=RTCGAToolbox.buildbin-libdir RTCGAToolbox_2.16.3.tar.gz && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL RTCGAToolbox_2.16.3.zip && rm RTCGAToolbox_2.16.3.tar.gz RTCGAToolbox_2.16.3.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 2540k  100 2540k    0     0  12.8M      0 --:--:-- --:--:-- --:--:-- 13.1M

install for i386

* installing *source* package 'RTCGAToolbox' ...
** 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 'RTCGAToolbox'
    finding HTML links ... done
    CorResult-class                         html  
    DGEResult-class                         html  
    FirehoseCGHArray-class                  html  
    FirehoseData-class                      html  
    FirehoseGISTIC-class                    html  
    FirehoseMethylationArray-class          html  
    FirehosemRNAArray-class                 html  
    RTCGASample                             html  
    RTCGAToolbox                            html  
    biocExtract                             html  
    finding level-2 HTML links ... done

Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpEBkIa2/R.INSTALL2bc07f5825bc/RTCGAToolbox/man/biocExtract.Rd:32: file link 'RaggedExperiment' in package 'RaggedExperiment' does not exist and so has been treated as a topic
    getBroadSubtypes                        html  
    getCNGECorrelation                      html  
    getData                                 html  
    getDiffExpressedGenes                   html  
    getFirehoseAnalyzeDates                 html  
    getFirehoseData                         html  
    getFirehoseDatasets                     html  
    getFirehoseRunningDates                 html  
    getGISTICPeaks                          html  
    getMutationRate                         html  
    getReport                               html  
    getSurvival                             html  
    hg19.ucsc.gene.locations                html  
    selectType                              html  
    showResults-CorResult                   html  
    showResults-DGEResult                   html  
    showResults                             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 'RTCGAToolbox' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'RTCGAToolbox' as RTCGAToolbox_2.16.3.zip
* DONE (RTCGAToolbox)
* installing to library 'C:/Users/biocbuild/bbs-3.10-bioc/R/library'
package 'RTCGAToolbox' successfully unpacked and MD5 sums checked