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INSTALL report for destiny on tokay1

This page was generated on 2018-04-12 13:26:38 -0400 (Thu, 12 Apr 2018).

Package 358/1472HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
destiny 2.6.2
Philipp Angerer
Snapshot Date: 2018-04-11 16:45:18 -0400 (Wed, 11 Apr 2018)
URL: https://git.bioconductor.org/packages/destiny
Branch: RELEASE_3_6
Last Commit: 24459aa
Last Changed Date: 2018-02-27 11:41:49 -0400 (Tue, 27 Feb 2018)
malbec1 Linux (Ubuntu 16.04.1 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
veracruz1 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: destiny
Version: 2.6.2
Command: rm -rf destiny.buildbin-libdir && mkdir destiny.buildbin-libdir && C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.6/bioc/src/contrib/destiny_2.6.2.tar.gz && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --library=destiny.buildbin-libdir --merge-multiarch destiny_2.6.2.tar.gz && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL destiny_2.6.2.zip && rm destiny_2.6.2.tar.gz destiny_2.6.2.zip
StartedAt: 2018-04-11 18:37:14 -0400 (Wed, 11 Apr 2018)
EndedAt: 2018-04-11 18:43:49 -0400 (Wed, 11 Apr 2018)
EllapsedTime: 395.0 seconds
RetCode: 0
Status:  OK  

Command output

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###
### Running command:
###
###   rm -rf destiny.buildbin-libdir && mkdir destiny.buildbin-libdir  && C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.6/bioc/src/contrib/destiny_2.6.2.tar.gz && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --library=destiny.buildbin-libdir --merge-multiarch destiny_2.6.2.tar.gz && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL destiny_2.6.2.zip  && rm destiny_2.6.2.tar.gz destiny_2.6.2.zip
###
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  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100 1407k  100 1407k    0     0  39.6M      0 --:--:-- --:--:-- --:--:-- 44.3M

install for i386

* installing *source* package 'destiny' ...
** libs
C:/Rtools/mingw_32/bin/g++  -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/RcppEigen/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/grDevices/include"   -I"C:/local323/include"  -ggdb   -O2 -Wall  -mtune=generic -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_32/bin/g++  -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/RcppEigen/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/grDevices/include"   -I"C:/local323/include"  -ggdb   -O2 -Wall  -mtune=generic -c censoring.cpp -o censoring.o
C:/Rtools/mingw_32/bin/g++  -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/RcppEigen/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/grDevices/include"   -I"C:/local323/include"  -ggdb   -O2 -Wall  -mtune=generic -c knn.cpp -o knn.o
C:/Rtools/mingw_32/bin/g++  -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/RcppEigen/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/grDevices/include"   -I"C:/local323/include"  -ggdb   -O2 -Wall  -mtune=generic -c utils.cpp -o utils.o
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o destiny.dll tmp.def RcppExports.o censoring.o knn.o utils.o -LC:/local323/lib/i386 -LC:/local323/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.6-bioc/meat/destiny.buildbin-libdir/destiny/libs/i386
** R
** data
** demo
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'destiny'
    finding HTML links ... done
    DPT-matrix-methods                      html  
    DPT-methods                             html  
    DPT                                     html  
    DiffusionMap-accessors                  html  
    DiffusionMap-class                      html  
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpyQpge2/R.INSTALL15d076cee09/destiny/man/DiffusionMap-class.Rd:56: missing file link 'ExpressionSet'
    DiffusionMap-methods                    html  
    ExpressionSet-helpers                   html  
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpyQpge2/R.INSTALL15d076cee09/destiny/man/ExpressionSet-helpers.Rd:10: missing file link 'ExpressionSet'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpyQpge2/R.INSTALL15d076cee09/destiny/man/ExpressionSet-helpers.Rd:34: missing file link 'ExpressionSet'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpyQpge2/R.INSTALL15d076cee09/destiny/man/ExpressionSet-helpers.Rd:20: missing file link 'ExpressionSet'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpyQpge2/R.INSTALL15d076cee09/destiny/man/ExpressionSet-helpers.Rd:31: missing file link 'ExpressionSet'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpyQpge2/R.INSTALL15d076cee09/destiny/man/ExpressionSet-helpers.Rd:50: missing file link 'ExpressionSet'
    Gene-Relevance-methods                  html  
    Gene-Relevance-plotting                 html  
    Gene-Relevance                          html  
    Sigmas-class                            html  
    coercions                               html  
    colorlegend                             html  
    cube_helix                              html  
    destiny-deprecated                      html  
    destiny-generics                        html  
    destiny                                 html  
    dm_predict                              html  
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpyQpge2/R.INSTALL15d076cee09/destiny/man/dm_predict.Rd:13: missing file link 'ExpressionSet'
    eig_decomp                              html  
    extractions                             html  
    find_dm_k                               html  
    find_sigmas                             html  
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpyQpge2/R.INSTALL15d076cee09/destiny/man/find_sigmas.Rd:13: missing file link 'ExpressionSet'
    find_tips                               html  
    guo                                     html  
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpyQpge2/R.INSTALL15d076cee09/destiny/man/guo.Rd:10: missing file link 'ExpressionSet'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpyQpge2/R.INSTALL15d076cee09/destiny/man/guo.Rd:16: missing file link 'ExpressionSet'
    knn                                     html  
    l_which                                 html  
    plot.DPT                                html  
    plot.DiffusionMap                       html  
    plot.Sigmas                             html  
    projection_dist                         html  
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpyQpge2/R.INSTALL15d076cee09/destiny/man/projection_dist.Rd:17: missing file link 'ExpressionSet'
    random_root                             html  
    updateObject-method                     html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'destiny' ...
** libs
C:/Rtools/mingw_64/bin/g++  -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/RcppEigen/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/grDevices/include"   -I"C:/local323/include"  -ggdb   -O2 -Wall  -mtune=generic -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_64/bin/g++  -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/RcppEigen/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/grDevices/include"   -I"C:/local323/include"  -ggdb   -O2 -Wall  -mtune=generic -c censoring.cpp -o censoring.o
C:/Rtools/mingw_64/bin/g++  -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/RcppEigen/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/grDevices/include"   -I"C:/local323/include"  -ggdb   -O2 -Wall  -mtune=generic -c knn.cpp -o knn.o
C:/Rtools/mingw_64/bin/g++  -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/RcppEigen/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/grDevices/include"   -I"C:/local323/include"  -ggdb   -O2 -Wall  -mtune=generic -c utils.cpp -o utils.o
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o destiny.dll tmp.def RcppExports.o censoring.o knn.o utils.o -LC:/local323/lib/x64 -LC:/local323/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.6-bioc/meat/destiny.buildbin-libdir/destiny/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'destiny' as destiny_2.6.2.zip
* DONE (destiny)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.6-bioc/R/library'
package 'destiny' successfully unpacked and MD5 sums checked
In R CMD INSTALL