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INSTALL report for DNAcopy on tokay1

This page was generated on 2019-04-13 11:19:26 -0400 (Sat, 13 Apr 2019).

Package 426/1649HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
DNAcopy 1.56.0
Venkatraman E. Seshan
Snapshot Date: 2019-04-12 17:01:30 -0400 (Fri, 12 Apr 2019)
URL: https://git.bioconductor.org/packages/DNAcopy
Branch: RELEASE_3_8
Last Commit: e521826
Last Changed Date: 2018-10-30 11:41:41 -0400 (Tue, 30 Oct 2018)
malbec1 Linux (Ubuntu 16.04.6 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay1 Windows Server 2012 R2 Standard / x64 [ OK ] OK  OK  OK UNNEEDED, same version exists in internal repository
merida1 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: DNAcopy
Version: 1.56.0
Command: C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.8/bioc/src/contrib/DNAcopy_1.56.0.tar.gz && rm -rf DNAcopy.buildbin-libdir && mkdir DNAcopy.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=DNAcopy.buildbin-libdir DNAcopy_1.56.0.tar.gz && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL DNAcopy_1.56.0.zip && rm DNAcopy_1.56.0.tar.gz DNAcopy_1.56.0.zip
StartedAt: 2019-04-12 18:22:25 -0400 (Fri, 12 Apr 2019)
EndedAt: 2019-04-12 18:23:26 -0400 (Fri, 12 Apr 2019)
EllapsedTime: 60.7 seconds
RetCode: 0
Status:  OK  

Command output

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### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.8/bioc/src/contrib/DNAcopy_1.56.0.tar.gz && rm -rf DNAcopy.buildbin-libdir && mkdir DNAcopy.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=DNAcopy.buildbin-libdir DNAcopy_1.56.0.tar.gz && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL DNAcopy_1.56.0.zip && rm DNAcopy_1.56.0.tar.gz DNAcopy_1.56.0.zip
###
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install for i386

* installing *source* package 'DNAcopy' ...
** libs
C:/Rtools/mingw_32/bin/gfortran      -O3  -mtune=generic -c cbsWtstats.f -o cbsWtstats.o
C:/Rtools/mingw_32/bin/gfortran      -O3  -mtune=generic -c cbststats.f -o cbststats.o
C:/Rtools/mingw_32/bin/gfortran      -O3  -mtune=generic -c changepoints-wtd.f -o changepoints-wtd.o
C:/Rtools/mingw_32/bin/gfortran      -O3  -mtune=generic -c changepoints.f -o changepoints.o
C:/Rtools/mingw_32/bin/gfortran      -O3  -mtune=generic -c esegment.f -o esegment.o
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O3 -Wall  -std=gnu99 -mtune=generic -c flchoose.c -o flchoose.o
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O3 -Wall  -std=gnu99 -mtune=generic -c fphyper.c -o fphyper.o
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O3 -Wall  -std=gnu99 -mtune=generic -c fpnorm.c -o fpnorm.o
C:/Rtools/mingw_32/bin/gfortran      -O3  -mtune=generic -c getbdry.f -o getbdry.o
C:/Rtools/mingw_32/bin/gfortran      -O3  -mtune=generic -c prune.f -o prune.o
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O3 -Wall  -std=gnu99 -mtune=generic -c rshared.c -o rshared.o
C:/Rtools/mingw_32/bin/gfortran      -O3  -mtune=generic -c segmentp.f -o segmentp.o
C:/Rtools/mingw_32/bin/gfortran      -O3  -mtune=generic -c smoothCNA.f -o smoothCNA.o
C:/Rtools/mingw_32/bin/gfortran      -O3  -mtune=generic -c tailprobs.f -o tailprobs.o
C:/Rtools/mingw_32/bin/gcc -shared -s -static-libgcc -o DNAcopy.dll tmp.def cbsWtstats.o cbststats.o changepoints-wtd.o changepoints.o esegment.o flchoose.o fphyper.o fpnorm.o getbdry.o prune.o rshared.o segmentp.o smoothCNA.o tailprobs.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -lgfortran -lm -lquadmath -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.8-bioc/meat/DNAcopy.buildbin-libdir/DNAcopy/libs/i386
** R
** data
*** moving datasets to lazyload DB
** demo
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'DNAcopy'
    finding HTML links ... done
    CNA                                     html  
    DNAcopy-internal                        html  
    DNAcopy                                 html  
    coriell                                 html  
    cytoBand                                html  
    exon.segment                            html  
    getbdry                                 html  
    glFrequency                             html  
    plot.DNAcopy                            html  
    plotSample                              html  
    segment                                 html  
    segments.p                              html  
    segments.summary                        html  
    smooth.CNA                              html  
    subset.CNA                              html  
    subset.DNAcopy                          html  
    zoomIntoRegion                          html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'DNAcopy' ...
** libs
C:/Rtools/mingw_64/bin/gfortran      -O2  -mtune=generic -c cbsWtstats.f -o cbsWtstats.o
C:/Rtools/mingw_64/bin/gfortran      -O2  -mtune=generic -c cbststats.f -o cbststats.o
C:/Rtools/mingw_64/bin/gfortran      -O2  -mtune=generic -c changepoints-wtd.f -o changepoints-wtd.o
C:/Rtools/mingw_64/bin/gfortran      -O2  -mtune=generic -c changepoints.f -o changepoints.o
C:/Rtools/mingw_64/bin/gfortran      -O2  -mtune=generic -c esegment.f -o esegment.o
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mtune=generic -c flchoose.c -o flchoose.o
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mtune=generic -c fphyper.c -o fphyper.o
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mtune=generic -c fpnorm.c -o fpnorm.o
C:/Rtools/mingw_64/bin/gfortran      -O2  -mtune=generic -c getbdry.f -o getbdry.o
C:/Rtools/mingw_64/bin/gfortran      -O2  -mtune=generic -c prune.f -o prune.o
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mtune=generic -c rshared.c -o rshared.o
C:/Rtools/mingw_64/bin/gfortran      -O2  -mtune=generic -c segmentp.f -o segmentp.o
C:/Rtools/mingw_64/bin/gfortran      -O2  -mtune=generic -c smoothCNA.f -o smoothCNA.o
C:/Rtools/mingw_64/bin/gfortran      -O2  -mtune=generic -c tailprobs.f -o tailprobs.o
C:/Rtools/mingw_64/bin/gcc -shared -s -static-libgcc -o DNAcopy.dll tmp.def cbsWtstats.o cbststats.o changepoints-wtd.o changepoints.o esegment.o flchoose.o fphyper.o fpnorm.o getbdry.o prune.o rshared.o segmentp.o smoothCNA.o tailprobs.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -lgfortran -lm -lquadmath -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.8-bioc/meat/DNAcopy.buildbin-libdir/DNAcopy/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'DNAcopy' as DNAcopy_1.56.0.zip
* DONE (DNAcopy)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.8-bioc/R/library'
package 'DNAcopy' successfully unpacked and MD5 sums checked
In R CMD INSTALL