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INSTALL report for DNAcopy on tokay2

This page was generated on 2019-10-16 12:19:22 -0400 (Wed, 16 Oct 2019).

Package 454/1741HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
DNAcopy 1.58.0
Venkatraman E. Seshan
Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019)
URL: https://git.bioconductor.org/packages/DNAcopy
Branch: RELEASE_3_9
Last Commit: 1954745
Last Changed Date: 2019-05-02 11:53:02 -0400 (Thu, 02 May 2019)
malbec2 Linux (Ubuntu 18.04.2 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64 [ OK ] OK  OK  OK UNNEEDED, same version exists in internal repository
celaya2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: DNAcopy
Version: 1.58.0
Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/DNAcopy_1.58.0.tar.gz && rm -rf DNAcopy.buildbin-libdir && mkdir DNAcopy.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=DNAcopy.buildbin-libdir DNAcopy_1.58.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL DNAcopy_1.58.0.zip && rm DNAcopy_1.58.0.tar.gz DNAcopy_1.58.0.zip
StartedAt: 2019-10-15 18:39:31 -0400 (Tue, 15 Oct 2019)
EndedAt: 2019-10-15 18:40:46 -0400 (Tue, 15 Oct 2019)
EllapsedTime: 74.4 seconds
RetCode: 0
Status:  OK  

Command output

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/DNAcopy_1.58.0.tar.gz && rm -rf DNAcopy.buildbin-libdir && mkdir DNAcopy.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=DNAcopy.buildbin-libdir DNAcopy_1.58.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL DNAcopy_1.58.0.zip && rm DNAcopy_1.58.0.tar.gz DNAcopy_1.58.0.zip
###
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100  114k  100  114k    0     0   405k      0 --:--:-- --:--:-- --:--:--  415k

install for i386

* installing *source* package 'DNAcopy' ...
** using staged installation
** 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-3~1.9-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-3~1.9-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-3~1.9-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-3~1.9-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-3~1.9-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.9-bioc/meat/DNAcopy.buildbin-libdir/00LOCK-DNAcopy/00new/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 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

* 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-3~1.9-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-3~1.9-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-3~1.9-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-3~1.9-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-3~1.9-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.9-bioc/meat/DNAcopy.buildbin-libdir/DNAcopy/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'DNAcopy' as DNAcopy_1.58.0.zip
* DONE (DNAcopy)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'DNAcopy' successfully unpacked and MD5 sums checked