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BioC 3.5: INSTALL report for GLAD on tokay2

This page was generated on 2017-10-18 14:18:58 -0400 (Wed, 18 Oct 2017).

Package 564/1381HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
GLAD 2.40.0
Philippe Hupe
Snapshot Date: 2017-10-17 17:00:52 -0400 (Tue, 17 Oct 2017)
URL: https://git.bioconductor.org/packages/GLAD
Branch: RELEASE_3_5
Last Commit: e9bb2d0
Last Changed Date: 2017-04-24 15:45:44 -0400 (Mon, 24 Apr 2017)
malbec2 Linux (Ubuntu 16.04.1 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
veracruz2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: GLAD
Version: 2.40.0
Command: rm -rf GLAD.buildbin-libdir && mkdir GLAD.buildbin-libdir && C:\cygwin\bin\curl.exe -O http://172.29.0.4/BBS/3.5/bioc/src/contrib/GLAD_2.40.0.tar.gz && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --library=GLAD.buildbin-libdir --merge-multiarch GLAD_2.40.0.tar.gz && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL GLAD_2.40.0.zip && rm GLAD_2.40.0.tar.gz GLAD_2.40.0.zip
StartedAt: 2017-10-17 18:08:43 -0400 (Tue, 17 Oct 2017)
EndedAt: 2017-10-17 18:09:48 -0400 (Tue, 17 Oct 2017)
EllapsedTime: 64.2 seconds
RetCode: 0
Status:  OK  

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf GLAD.buildbin-libdir && mkdir GLAD.buildbin-libdir  && C:\cygwin\bin\curl.exe -O http://172.29.0.4/BBS/3.5/bioc/src/contrib/GLAD_2.40.0.tar.gz && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --library=GLAD.buildbin-libdir --merge-multiarch GLAD_2.40.0.tar.gz && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL GLAD_2.40.0.zip  && rm GLAD_2.40.0.tar.gz GLAD_2.40.0.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
  4  385k    4 15817    0     0  28278      0  0:00:13 --:--:--  0:00:13 28295
100  385k  100  385k    0     0   646k      0 --:--:-- --:--:-- --:--:--  647k

install for i386

* installing *source* package 'GLAD' ...

   **********************************************
   WARNING: this package has a configure script
         It probably needs manual configuration
   **********************************************


** libs
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I/src/include -I/i386/include    -I"C:/local323/include"     -O2 -Wall  -mtune=core2 -c BkpInfo.cpp -o BkpInfo.o
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I/src/include -I/i386/include    -I"C:/local323/include"     -O2 -Wall  -mtune=core2 -c HaarSeg.cpp -o HaarSeg.o
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I/src/include -I/i386/include    -I"C:/local323/include"     -O2 -Wall  -mtune=core2 -c MoveBkp.cpp -o MoveBkp.o
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I/src/include -I/i386/include    -I"C:/local323/include"     -O2 -Wall  -mtune=core2 -c OutliersGNL.cpp -o OutliersGNL.o
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I/src/include -I/i386/include    -I"C:/local323/include"     -O2 -Wall  -mtune=core2 -c chrBreakpoints.cpp -o chrBreakpoints.o
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I/src/include -I/i386/include    -I"C:/local323/include"     -O2 -Wall  -mtune=core2 -c cutree.cpp -o cutree.o
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I/src/include -I/i386/include    -I"C:/local323/include"     -O2 -Wall  -mtune=core2 -c daglad.cpp -o daglad.o
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I/src/include -I/i386/include    -I"C:/local323/include"     -O2 -Wall  -mtune=core2 -c distance.cpp -o distance.o
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I/src/include -I/i386/include    -I"C:/local323/include"     -O2 -Wall  -mtune=core2 -c filterBkp.cpp -o filterBkp.o
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I/src/include -I/i386/include    -I"C:/local323/include"     -O2 -Wall  -mtune=core2 -c findCluster.cpp -o findCluster.o
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I/src/include -I/i386/include    -I"C:/local323/include"     -O2 -Wall  -mtune=core2 -c glad-utils.cpp -o glad-utils.o
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I/src/include -I/i386/include    -I"C:/local323/include"     -O2 -Wall  -mtune=core2 -c hclust.cpp -o hclust.o
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I/src/include -I/i386/include    -I"C:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c laws.c -o laws.o
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I/src/include -I/i386/include    -I"C:/local323/include"     -O2 -Wall  -mtune=core2 -c loopRemove.cpp -o loopRemove.o
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o GLAD.dll tmp.def BkpInfo.o HaarSeg.o MoveBkp.o OutliersGNL.o chrBreakpoints.o cutree.o daglad.o distance.o filterBkp.o findCluster.o glad-utils.o hclust.o laws.o loopRemove.o -L/i386/lib -lgsl -lgslcblas -lm -LC:/local323/lib/i386 -LC:/local323/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.5-bioc/meat/GLAD.buildbin-libdir/GLAD/libs/i386
** R
** data
** demo
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded

install for x64

* installing *source* package 'GLAD' ...

   **********************************************
   WARNING: this package has a configure script
         It probably needs manual configuration
   **********************************************


** libs
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I/src/include -I/x64/include    -I"C:/local323/include"     -O2 -Wall  -mtune=core2 -c BkpInfo.cpp -o BkpInfo.o
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I/src/include -I/x64/include    -I"C:/local323/include"     -O2 -Wall  -mtune=core2 -c HaarSeg.cpp -o HaarSeg.o
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I/src/include -I/x64/include    -I"C:/local323/include"     -O2 -Wall  -mtune=core2 -c MoveBkp.cpp -o MoveBkp.o
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I/src/include -I/x64/include    -I"C:/local323/include"     -O2 -Wall  -mtune=core2 -c OutliersGNL.cpp -o OutliersGNL.o
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I/src/include -I/x64/include    -I"C:/local323/include"     -O2 -Wall  -mtune=core2 -c chrBreakpoints.cpp -o chrBreakpoints.o
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I/src/include -I/x64/include    -I"C:/local323/include"     -O2 -Wall  -mtune=core2 -c cutree.cpp -o cutree.o
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I/src/include -I/x64/include    -I"C:/local323/include"     -O2 -Wall  -mtune=core2 -c daglad.cpp -o daglad.o
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I/src/include -I/x64/include    -I"C:/local323/include"     -O2 -Wall  -mtune=core2 -c distance.cpp -o distance.o
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I/src/include -I/x64/include    -I"C:/local323/include"     -O2 -Wall  -mtune=core2 -c filterBkp.cpp -o filterBkp.o
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I/src/include -I/x64/include    -I"C:/local323/include"     -O2 -Wall  -mtune=core2 -c findCluster.cpp -o findCluster.o
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I/src/include -I/x64/include    -I"C:/local323/include"     -O2 -Wall  -mtune=core2 -c glad-utils.cpp -o glad-utils.o
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I/src/include -I/x64/include    -I"C:/local323/include"     -O2 -Wall  -mtune=core2 -c hclust.cpp -o hclust.o
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I/src/include -I/x64/include    -I"C:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c laws.c -o laws.o
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I/src/include -I/x64/include    -I"C:/local323/include"     -O2 -Wall  -mtune=core2 -c loopRemove.cpp -o loopRemove.o
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o GLAD.dll tmp.def BkpInfo.o HaarSeg.o MoveBkp.o OutliersGNL.o chrBreakpoints.o cutree.o daglad.o distance.o filterBkp.o findCluster.o glad-utils.o hclust.o laws.o loopRemove.o -L/x64/lib -lgsl -lgslcblas -lm -LC:/local323/lib/x64 -LC:/local323/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.5-bioc/meat/GLAD.buildbin-libdir/GLAD/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'GLAD' as GLAD_2.40.0.zip
* DONE (GLAD)
* installing to library 'C:/Users/biocbuild/bbs-3.5-bioc/R/library'
package 'GLAD' successfully unpacked and MD5 sums checked