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INSTALL report for VanillaICE on tokay2

This page was generated on 2019-10-16 12:21:26 -0400 (Wed, 16 Oct 2019).

Package 1704/1741HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
VanillaICE 1.46.0
Robert Scharpf
Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019)
URL: https://git.bioconductor.org/packages/VanillaICE
Branch: RELEASE_3_9
Last Commit: 1566ddf
Last Changed Date: 2019-05-02 11:53:08 -0400 (Thu, 02 May 2019)
malbec2 Linux (Ubuntu 18.04.2 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64 [ OK ] OK  OK  OK UNNEEDED, same version exists in internal repository
celaya2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: VanillaICE
Version: 1.46.0
Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/VanillaICE_1.46.0.tar.gz && rm -rf VanillaICE.buildbin-libdir && mkdir VanillaICE.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=VanillaICE.buildbin-libdir VanillaICE_1.46.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL VanillaICE_1.46.0.zip && rm VanillaICE_1.46.0.tar.gz VanillaICE_1.46.0.zip
StartedAt: 2019-10-15 20:43:53 -0400 (Tue, 15 Oct 2019)
EndedAt: 2019-10-15 20:45:17 -0400 (Tue, 15 Oct 2019)
EllapsedTime: 83.3 seconds
RetCode: 0
Status:  OK  

Command output

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/VanillaICE_1.46.0.tar.gz && rm -rf VanillaICE.buildbin-libdir && mkdir VanillaICE.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=VanillaICE.buildbin-libdir VanillaICE_1.46.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL VanillaICE_1.46.0.zip && rm VanillaICE_1.46.0.tar.gz VanillaICE_1.46.0.zip
###
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100 1095k  100 1095k    0     0  15.7M      0 --:--:-- --:--:-- --:--:-- 17.2M

install for i386

* installing *source* package 'VanillaICE' ...
** using staged installation
** libs
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O3 -Wall  -std=gnu99 -mtune=generic -c rinit.c -o rinit.o
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O3 -Wall  -std=gnu99 -mtune=generic -c viterbi.c -o viterbi.o
C:/Rtools/mingw_32/bin/gcc -shared -s -static-libgcc -o VanillaICE.dll tmp.def rinit.o viterbi.o -lm -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.9-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.9-bioc/meat/VanillaICE.buildbin-libdir/00LOCK-VanillaICE/00new/VanillaICE/libs/i386
** R
** data
** inst
** byte-compile and prepare package for lazy loading
Creating a new generic function for 'distance' in package 'VanillaICE'
** help
*** installing help indices
  converting help for package 'VanillaICE'
    finding HTML links ... done
    ArrayViews-class                        html  
    CopyNumScanParams                       html  
    finding level-2 HTML links ... done

    EmissionParam-methods                   html  
    FilterParam-class                       html  
    HMM                                     html  
    HMMList-class                           html  
    HMMList                                 html  
    HmmGRanges-methods                      html  
    HmmParam                                html  
    HmmTrellisParam                         html  
    IO                                      html  
    IdiogramParam-class                     html  
    IdiogramParams-class                    html  
    LogLik-class                            html  
    LogLik                                  html  
    LowLevelSummaries                       html  
    NA_filter                               html  
    SnpArrayExperiment-class                html  
    SnpExperiment                           html  
    SnpGRanges                              html  
    TransitionParam                         html  
    VanillaICE                              html  
    Viterbi-methods                         html  
    acf2                                    html  
    baumWelchUpdate                         html  
    calculateEmission                       html  
    cnvFilter                               html  
    doUpdate                                html  
    dropDuplicatedMapLocs                   html  
    dropSexChrom                            html  
    emission                                html  
    emissionParam                           html  
    filters                                 html  
    getExampleSnpExperiment                 html  
    getHmmParams                            html  
    hmm2                                    html  
    hmmResults                              html  
    isHeterozygous                          html  
    matrixOrNULL-class                      html  
    numberFeatures                          html  
    parseSourceFile                         html  
    parsedPath                              html  
    plotting                                html  
    probability                             html  
    rescale                                 html  
    robust-statistics                       html  
    segs                                    html  
    snpArrayAssays                          html  
    snp_exp                                 html  
    sourcePaths                             html  
    start-oligoSnpSet-method                html  
    state-methods                           html  
    sweepMode                               html  
    threshold                               html  
    updateHmmParams                         html  
    viewports                               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 'VanillaICE' ...
** libs
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mtune=generic -c rinit.c -o rinit.o
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mtune=generic -c viterbi.c -o viterbi.o
C:/Rtools/mingw_64/bin/gcc -shared -s -static-libgcc -o VanillaICE.dll tmp.def rinit.o viterbi.o -lm -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.9-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.9-bioc/meat/VanillaICE.buildbin-libdir/VanillaICE/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'VanillaICE' as VanillaICE_1.46.0.zip
* DONE (VanillaICE)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'VanillaICE' successfully unpacked and MD5 sums checked