Package: sva

Version: 3.28.0

Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/sva_3.28.0.tar.gz && rm -rf sva.buildbin-libdir && mkdir sva.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=sva.buildbin-libdir sva_3.28.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL sva_3.28.0.zip && rm sva_3.28.0.tar.gz sva_3.28.0.zip

StartedAt: 2018-10-16 19:12:19 -0400 (Tue, 16 Oct 2018)

EndedAt: 2018-10-16 19:13:31 -0400 (Tue, 16 Oct 2018)

EllapsedTime: 71.5 seconds

RetCode: 0

Status:  OK

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/sva_3.28.0.tar.gz && rm -rf sva.buildbin-libdir && mkdir sva.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=sva.buildbin-libdir sva_3.28.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL sva_3.28.0.zip && rm sva_3.28.0.tar.gz sva_3.28.0.zip
###
##############################################################################
##############################################################################


  % 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  199k  100  199k    0     0  3169k      0 --:--:-- --:--:-- --:--:-- 3619k

install for i386

* installing *source* package 'sva' ...
** libs
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O3 -Wall  -std=gnu99 -mtune=generic -c sva.c -o sva.o
sva.c:30:1: warning: missing braces around initializer [-Wmissing-braces]
 };
 ^
sva.c:30:1: warning: (near initialization for 'callMethods[1]') [-Wmissing-braces]
C:/Rtools/mingw_32/bin/gcc -shared -s -static-libgcc -o sva.dll tmp.def sva.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.7-bioc/meat/sva.buildbin-libdir/sva/libs/i386
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'sva'
    finding HTML links ... done
    ComBat                                  html  
    empirical.controls                      html  
    f.pvalue                                html  
    fstats                                  html  
    fsva                                    html  
    irwsva.build                            html  
    num.sv                                  html  
    psva                                    html  
    qsva                                    html  
    read.degradation.matrix                 html  
    ssva                                    html  
    sva                                     html  
    sva.check                               html  
    svaseq                                  html  
    twostepsva.build                        html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'sva' ...
** libs
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mtune=generic -c sva.c -o sva.o
sva.c:30:1: warning: missing braces around initializer [-Wmissing-braces]
 };
 ^
sva.c:30:1: warning: (near initialization for 'callMethods[1]') [-Wmissing-braces]
C:/Rtools/mingw_64/bin/gcc -shared -s -static-libgcc -o sva.dll tmp.def sva.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.7-bioc/meat/sva.buildbin-libdir/sva/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'sva' as sva_3.28.0.zip
* DONE (sva)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.7-bioc/R/library'
package 'sva' successfully unpacked and MD5 sums checked
In R CMD INSTALL