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INSTALL report for MTseeker on tokay2

This page was generated on 2020-10-17 11:57:13 -0400 (Sat, 17 Oct 2020).

TO THE DEVELOPERS/MAINTAINERS OF THE MTseeker PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 1149/1905HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
MTseeker 1.6.0
Tim Triche
Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020)
URL: https://git.bioconductor.org/packages/MTseeker
Branch: RELEASE_3_11
Last Commit: 4f202d7
Last Changed Date: 2020-04-27 15:21:38 -0400 (Mon, 27 Apr 2020)
malbec2 Linux (Ubuntu 18.04.4 LTS) / x86_64  OK  ERROR  skipped 
tokay2 Windows Server 2012 R2 Standard / x64 [ OK ] ERROR  skipped  skipped 
machv2 macOS 10.14.6 Mojave / x86_64  OK  ERROR  skipped  skipped 

Summary

Package: MTseeker
Version: 1.6.0
Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/MTseeker_1.6.0.tar.gz && rm -rf MTseeker.buildbin-libdir && mkdir MTseeker.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=MTseeker.buildbin-libdir MTseeker_1.6.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL MTseeker_1.6.0.zip && rm MTseeker_1.6.0.tar.gz MTseeker_1.6.0.zip
StartedAt: 2020-10-16 19:17:05 -0400 (Fri, 16 Oct 2020)
EndedAt: 2020-10-16 19:20:24 -0400 (Fri, 16 Oct 2020)
EllapsedTime: 198.4 seconds
RetCode: 0
Status:  OK  

Command output

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/MTseeker_1.6.0.tar.gz && rm -rf MTseeker.buildbin-libdir && mkdir MTseeker.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=MTseeker.buildbin-libdir MTseeker_1.6.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL MTseeker_1.6.0.zip && rm MTseeker_1.6.0.tar.gz MTseeker_1.6.0.zip
###
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  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
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  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100 3035k  100 3035k    0     0  29.2M      0 --:--:-- --:--:-- --:--:-- 31.1M

install for i386

* installing *source* package 'MTseeker' ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'MTseeker'
    finding HTML links ... done
    MAlignments-class                       html  
    MAlignments-methods                     html  
    MAlignmentsList-class                   html  
    MAlignmentsList-methods                 html  
    MTHGVS                                  html  
    MTcircos                                html  
    MTcomplex                               html  
    MTcoverage                              html  
    finding level-2 HTML links ... done

    MVRanges-class                          html  
    MVRanges-methods                        html  
    MVRangesList-class                      html  
    MVRangesList-methods                    html  
    anno_rCRS                               html  
    byStrand                                html  
    chrominfo.rCRS                          html  
    decomposeAndCalcConsequences            html  
    depthFilterAndHaploMask                 html  
    exportFilteredAsVcf                     html  
    filterMT                                html  
    filterMTvars                            html  
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpyeLWkL/R.INSTALL2c6450b65939/MTseeker/man/filterMTvars.Rd:14: missing link 'this number'
    fixMetadata                             html  
    fpFilter_RSRS                           html  
    fpFilter_Triska                         html  
    getMT                                   html  
    getProteinImpact                        html  
    haploMask                               html  
    haplomask_whitelist                     html  
    hg19TorCRS                              html  
    importVCF                               html  
    injectMTVariants                        html  
    lift_up_to_rCRS                         html  
    locateMTvariants                        html  
    mtAnno                                  html  
    mtGenes                                 html  
    mtGenes.rCRS                            html  
    newFilterMT                             html  
    pileupMT                                html  
    pileupXenograft                         html  
    rCRSeq                                  html  
    rawMTreads                              html  
    s4Methods                               html  
    scanMT                                  html  
    validMetadata                           html  
    vcf2mvrl                                html  
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
Warning: Package 'MTseeker' is deprecated and will be removed from Bioconductor
  version 3.12
** testing if installed package can be loaded from final location
Warning: Package 'MTseeker' is deprecated and will be removed from Bioconductor
  version 3.12
** testing if installed package keeps a record of temporary installation path

install for x64

* installing *source* package 'MTseeker' ...
** testing if installed package can be loaded
Warning: Package 'MTseeker' is deprecated and will be removed from Bioconductor
  version 3.12
* MD5 sums
packaged installation of 'MTseeker' as MTseeker_1.6.0.zip
* DONE (MTseeker)
* installing to library 'C:/Users/biocbuild/bbs-3.11-bioc/R/library'
package 'MTseeker' successfully unpacked and MD5 sums checked