Multiple platform build/check report for BioC 3.10 - INSTALL report for destiny on tokay1

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### Running command:
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###   C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.10/bioc/src/contrib/destiny_3.0.1.tar.gz && rm -rf destiny.buildbin-libdir && mkdir destiny.buildbin-libdir && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=destiny.buildbin-libdir destiny_3.0.1.tar.gz && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL destiny_3.0.1.zip && rm destiny_3.0.1.tar.gz destiny_3.0.1.zip
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  % 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 4220k  100 4220k    0     0  45.7M      0 --:--:-- --:--:-- --:--:-- 47.9M

install for i386

Warning in untar2(tarfile, files, list, exdir, restore_times) :
  failed to copy 'destiny/docs/reference/updateObject-methods.html' to 'destiny/docs/reference/updateObject-method.html'
* installing *source* package 'destiny' ...
** using staged installation
** libs
C:/Rtools/mingw_32/bin/g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppEigen/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/grDevices/include"   -I"C:/extsoft/include"  -ggdb   -O2 -Wall  -mtune=core2 -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_32/bin/g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppEigen/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/grDevices/include"   -I"C:/extsoft/include"  -ggdb   -O2 -Wall  -mtune=core2 -c censoring.cpp -o censoring.o
C:/Rtools/mingw_32/bin/g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppEigen/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/grDevices/include"   -I"C:/extsoft/include"  -ggdb   -O2 -Wall  -mtune=core2 -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 utils.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.10-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.10-bioc/meat/destiny.buildbin-libdir/00LOCK-destiny/00new/destiny/libs/i386
** R
** data
** demo
** inst
** byte-compile and prepare package for lazy loading
From .checkSubclasses(): subclass "dgTMatrix" of class "dsparseMatrix" is not local and is not updated for new inheritance information currently; 
[where=<environment: 0x038c78f0>, where2=<environment: namespace:destiny>]
From .checkSubclasses(): subclass "dtTMatrix" of class "dsparseMatrix" is not local and is not updated for new inheritance information currently; 
[where=<environment: 0x038c78f0>, where2=<environment: namespace:destiny>]
From .checkSubclasses(): subclass "dsTMatrix" of class "dsparseMatrix" is not local and is not updated for new inheritance information currently; 
[where=<environment: 0x038c78f0>, where2=<environment: namespace:destiny>]
From .checkSubclasses(): subclass "dgCMatrix" of class "dsparseMatrix" is not local and is not updated for new inheritance information currently; 
[where=<environment: 0x038c78f0>, where2=<environment: namespace:destiny>]
From .checkSubclasses(): subclass "dtCMatrix" of class "dsparseMatrix" is not local and is not updated for new inheritance information currently; 
[where=<environment: 0x038c78f0>, where2=<environment: namespace:destiny>]
From .checkSubclasses(): subclass "dsCMatrix" of class "dsparseMatrix" is not local and is not updated for new inheritance information currently; 
[where=<environment: 0x038c78f0>, where2=<environment: namespace:destiny>]
From .checkSubclasses(): subclass "dgRMatrix" of class "dsparseMatrix" is not local and is not updated for new inheritance information currently; 
[where=<environment: 0x038c78f0>, where2=<environment: namespace:destiny>]
From .checkSubclasses(): subclass "dtRMatrix" of class "dsparseMatrix" is not local and is not updated for new inheritance information currently; 
[where=<environment: 0x038c78f0>, where2=<environment: namespace:destiny>]
From .checkSubclasses(): subclass "dsRMatrix" of class "dsparseMatrix" is not local and is not updated for new inheritance information currently; 
[where=<environment: 0x038c78f0>, where2=<environment: namespace:destiny>]
** 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  
    DiffusionMap-methods                    html  
    ExpressionSet-helpers                   html  
    Gene-Relevance-methods                  html  
    Gene-Relevance-plotting                 html  
    Gene-Relevance                          html  
    Sigmas-class                            html  
    coercions                               html  
    colorlegend                             html  
    cube_helix                              html  
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpczysLq/R.INSTALL25702a362bcc/destiny/man/cube_helix.Rd:53: file link 'hcl.colors' in package 'grDevices' does not exist and so has been treated as a topic
    destiny-deprecated                      html  
    destiny-generics                        html  
    destiny                                 html  
    dm_predict                              html  
    eig_decomp                              html  
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpczysLq/R.INSTALL25702a362bcc/destiny/man/eig_decomp.Rd:26: file link 'set.seed' in package 'base' does not exist and so has been treated as a topic
    extractions                             html  
    find_dm_k                               html  
    find_sigmas                             html  
    find_tips                               html  
    guo                                     html  
    knn                                     html  
    l_which                                 html  
    plot.DPT                                html  
    plot.DiffusionMap                       html  
    plot.Sigmas                             html  
    projection_dist                         html  
    random_root                             html  
    updateObject-methods                    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

Warning in untar2(tarfile, files, list, exdir, restore_times) :
  failed to copy 'destiny/docs/reference/updateObject-methods.html' to 'destiny/docs/reference/updateObject-method.html'
* installing *source* package 'destiny' ...
** libs
C:/Rtools/mingw_64/bin/g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppEigen/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/grDevices/include"   -I"C:/extsoft/include"  -ggdb   -O2 -Wall  -mtune=core2 -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_64/bin/g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppEigen/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/grDevices/include"   -I"C:/extsoft/include"  -ggdb   -O2 -Wall  -mtune=core2 -c censoring.cpp -o censoring.o
C:/Rtools/mingw_64/bin/g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppEigen/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/grDevices/include"   -I"C:/extsoft/include"  -ggdb   -O2 -Wall  -mtune=core2 -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 utils.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.10-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.10-bioc/meat/destiny.buildbin-libdir/destiny/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'destiny' as destiny_3.0.1.zip
* DONE (destiny)
* installing to library 'C:/Users/biocbuild/bbs-3.10-bioc/R/library'
package 'destiny' successfully unpacked and MD5 sums checked
INSTALL report for destiny on tokay1

Summary

Command output
