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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://172.29.0.3/BBS/3.12/bioc/src/contrib/CorMut_1.32.0.tar.gz && rm -rf CorMut.buildbin-libdir && mkdir CorMut.buildbin-libdir && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=CorMut.buildbin-libdir CorMut_1.32.0.tar.gz && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL CorMut_1.32.0.zip && rm CorMut_1.32.0.tar.gz CorMut_1.32.0.zip
###
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install for i386

* installing *source* package 'CorMut' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
Warning in .recursiveCallTest(body, fname) :
  the body of the generic function for 'seq_num.CorMut' calls 'standardGeneric' to dispatch on a different name ("aslot")!
Warning in .recursiveCallTest(body, fname) :
  the body of the generic function for 'kaks.CorMut' calls 'standardGeneric' to dispatch on a different name ("aslot")!
Warning in .recursiveCallTest(body, fname) :
  the body of the generic function for 'lod.CorMut' calls 'standardGeneric' to dispatch on a different name ("aslot")!
Warning in .recursiveCallTest(body, fname) :
  the body of the generic function for 'q.CorMut' calls 'standardGeneric' to dispatch on a different name ("aslot")!
Warning in .recursiveCallTest(body, fname) :
  the body of the generic function for 'ka.CorMut' calls 'standardGeneric' to dispatch on a different name ("aslot")!
Warning in .recursiveCallTest(body, fname) :
  the body of the generic function for 'ks.CorMut' calls 'standardGeneric' to dispatch on a different name ("aslot")!
Warning in .recursiveCallTest(body, fname) :
  the body of the generic function for 'mi.CorMut' calls 'standardGeneric' to dispatch on a different name ("aslot")!
Warning in .recursiveCallTest(body, fname) :
  the body of the generic function for 'p.value.CorMut' calls 'standardGeneric' to dispatch on a different name ("aslot")!
Warning in .recursiveCallTest(body, fname) :
  the body of the generic function for 'ckaks.CorMut' calls 'standardGeneric' to dispatch on a different name ("aslot")!
Warning in .recursiveCallTest(body, fname) :
  the body of the generic function for 'method.CorMut' calls 'standardGeneric' to dispatch on a different name ("aslot")!
Warning in .recursiveCallTest(body, fname) :
  the body of the generic function for 'positiveSite01.CorMut' calls 'standardGeneric' to dispatch on a different name ("aslot")!
Warning in .recursiveCallTest(body, fname) :
  the body of the generic function for 'positiveSite02.CorMut' calls 'standardGeneric' to dispatch on a different name ("aslot")!
Warning in .recursiveCallTest(body, fname) :
  the body of the generic function for 'state_1.CorMut' calls 'standardGeneric' to dispatch on a different name ("aslot")!
Warning in .recursiveCallTest(body, fname) :
  the body of the generic function for 'statistic_1.CorMut' calls 'standardGeneric' to dispatch on a different name ("aslot")!
Warning in .recursiveCallTest(body, fname) :
  the body of the generic function for 'state_2.CorMut' calls 'standardGeneric' to dispatch on a different name ("aslot")!
Warning in .recursiveCallTest(body, fname) :
  the body of the generic function for 'statistic_2.CorMut' calls 'standardGeneric' to dispatch on a different name ("aslot")!
** help
*** installing help indices
  converting help for package 'CorMut'
    finding HTML links ... done
    CorMut-package                          html  
    JI-class                                html  
    MI-class                                html  
    biCkaksCodon-class                      html  
    biCompare-class                         html  
    biCompare-methods                       html  
    ckaks-class                             html  
    ckaksAA                                 html  
    ckaksCodon                              html  
    filterSites-methods                     html  
    jiAA                                    html  
    kaksAA-class                            html  
    kaksAA                                  html  
    kaksCodon-class                         html  
    kaksCodon                               html  
    miAA                                    html  
    miCodon                                 html  
    plot-methods                            html  
    seqFormat-methods                       html  
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
Warning: Package 'CorMut' is deprecated and will be removed from Bioconductor
  version 3.13
** testing if installed package can be loaded from final location
Warning: Package 'CorMut' is deprecated and will be removed from Bioconductor
  version 3.13
** testing if installed package keeps a record of temporary installation path

install for x64

* installing *source* package 'CorMut' ...
** testing if installed package can be loaded
Warning: Package 'CorMut' is deprecated and will be removed from Bioconductor
  version 3.13
* MD5 sums
packaged installation of 'CorMut' as CorMut_1.32.0.zip
* DONE (CorMut)
* installing to library 'C:/Users/biocbuild/bbs-3.12-bioc/R/library'
package 'CorMut' successfully unpacked and MD5 sums checked