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BioC 3.4: INSTALL report for openCyto on moscato1

This page was generated on 2016-09-21 03:45:19 -0700 (Wed, 21 Sep 2016).

Package 847/1257HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
openCyto 1.11.8
Mike Jiang
Snapshot Date: 2016-09-19 19:15:14 -0700 (Mon, 19 Sep 2016)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/openCyto
Last Changed Rev: 120277 / Revision: 121152
Last Changed Date: 2016-08-18 16:21:45 -0700 (Thu, 18 Aug 2016)
zin1 Linux (Ubuntu 16.04 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
moscato1 Windows Server 2008 R2 Standard (64-bit) / x64 [ OK ] OK  OK  OK UNNEEDED, same version exists in internal repository
morelia Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository

Summary

Package: openCyto
Version: 1.11.8
Command: rm -rf openCyto.buildbin-libdir && mkdir openCyto.buildbin-libdir && C:\cygwin\bin\curl.exe -O http://zin1/BBS/3.4/bioc/src/contrib/openCyto_1.11.8.tar.gz && D:\biocbld\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL --build --library=openCyto.buildbin-libdir --merge-multiarch openCyto_1.11.8.tar.gz && D:\biocbld\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL openCyto_1.11.8.zip && rm openCyto_1.11.8.tar.gz openCyto_1.11.8.zip
StartedAt: 2016-09-19 21:01:05 -0700 (Mon, 19 Sep 2016)
EndedAt: 2016-09-19 21:01:56 -0700 (Mon, 19 Sep 2016)
EllapsedTime: 51.2 seconds
RetCode: 0
Status:  OK  

Command output

##############################################################################
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###
### Running command:
###
###   rm -rf openCyto.buildbin-libdir && mkdir openCyto.buildbin-libdir  && C:\cygwin\bin\curl.exe -O http://zin1/BBS/3.4/bioc/src/contrib/openCyto_1.11.8.tar.gz && D:\biocbld\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL --build --library=openCyto.buildbin-libdir --merge-multiarch openCyto_1.11.8.tar.gz && D:\biocbld\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL openCyto_1.11.8.zip  && rm openCyto_1.11.8.tar.gz openCyto_1.11.8.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  816k  100  816k    0     0  32.2M      0 --:--:-- --:--:-- --:--:-- 37.9M

install for i386

* installing *source* package 'openCyto' ...
** libs
C:/Rtools/mingw_32/bin/g++  -I"D:/biocbld/BBS-3˜1.4-B/R/include" -DNDEBUG    -I"D:/biocbld/bbs-3.4-bioc/R/library/Rcpp/include" -I"c:/local323/include"     -O2 -Wall  -mtune=core2 -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_32/bin/g++  -I"D:/biocbld/BBS-3˜1.4-B/R/include" -DNDEBUG    -I"D:/biocbld/bbs-3.4-bioc/R/library/Rcpp/include" -I"c:/local323/include"     -O2 -Wall  -mtune=core2 -c misc.cpp -o misc.o
misc.cpp: In function 'Rcpp::NumericMatrix collapseData(Rcpp::List, Rcpp::StringVector)':
misc.cpp:10:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for(unsigned i = 0; i < mat_list.size(); i++){
                        ^
misc.cpp:21:31: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(unsigned ind = 0; ind < mat_list.size(); ind++){
                               ^
C:/Rtools/mingw_32/bin/gcc  -I"D:/biocbld/BBS-3˜1.4-B/R/include" -DNDEBUG    -I"D:/biocbld/bbs-3.4-bioc/R/library/Rcpp/include" -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c unlockNamespace.c -o unlockNamespace.o
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o openCyto.dll tmp.def RcppExports.o misc.o unlockNamespace.o -Lc:/local323/lib/i386 -Lc:/local323/lib -LD:/biocbld/BBS-3˜1.4-B/R/bin/i386 -lR
installing to D:/biocbld/bbs-3.4-bioc/meat/openCyto.buildbin-libdir/openCyto/libs/i386
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   'HowToAutoGating.Rmd' 
   'HowToWriteCSVTemplate.Rmd' 
   'openCytoVignette.Rmd' 
** testing if installed package can be loaded

install for x64

* installing *source* package 'openCyto' ...
** libs
C:/Rtools/mingw_64/bin/g++  -I"D:/biocbld/BBS-3˜1.4-B/R/include" -DNDEBUG    -I"D:/biocbld/bbs-3.4-bioc/R/library/Rcpp/include" -I"c:/local323/include"     -O2 -Wall  -mtune=core2 -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_64/bin/g++  -I"D:/biocbld/BBS-3˜1.4-B/R/include" -DNDEBUG    -I"D:/biocbld/bbs-3.4-bioc/R/library/Rcpp/include" -I"c:/local323/include"     -O2 -Wall  -mtune=core2 -c misc.cpp -o misc.o
C:/Rtools/mingw_64/bin/gcc  -I"D:/biocbld/BBS-3˜1.4-B/R/include" -DNDEBUG    -I"D:/biocbld/bbs-3.4-bioc/R/library/Rcpp/include" -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c unlockNamespace.c -o unlockNamespace.o
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o openCyto.dll tmp.def RcppExports.o misc.o unlockNamespace.o -Lc:/local323/lib/x64 -Lc:/local323/lib -LD:/biocbld/BBS-3˜1.4-B/R/bin/x64 -lR
installing to D:/biocbld/bbs-3.4-bioc/meat/openCyto.buildbin-libdir/openCyto/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'openCyto' as openCyto_1.11.8.zip
* DONE (openCyto)
* installing to library 'D:/biocbld/bbs-3.4-bioc/R/library'
package 'openCyto' successfully unpacked and MD5 sums checked