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BioC 3.4: INSTALL report for GOSemSim on moscato1

This page was generated on 2016-09-21 03:42:40 -0700 (Wed, 21 Sep 2016).

Package 528/1257HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
GOSemSim 1.99.4
Guangchuang Yu
Snapshot Date: 2016-09-19 19:15:14 -0700 (Mon, 19 Sep 2016)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/GOSemSim
Last Changed Rev: 120607 / Revision: 121152
Last Changed Date: 2016-08-30 23:04:15 -0700 (Tue, 30 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  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: GOSemSim
Version: 1.99.4
Command: rm -rf GOSemSim.buildbin-libdir && mkdir GOSemSim.buildbin-libdir && C:\cygwin\bin\curl.exe -O http://zin1/BBS/3.4/bioc/src/contrib/GOSemSim_1.99.4.tar.gz && D:\biocbld\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL --build --library=GOSemSim.buildbin-libdir --merge-multiarch GOSemSim_1.99.4.tar.gz && D:\biocbld\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL GOSemSim_1.99.4.zip && rm GOSemSim_1.99.4.tar.gz GOSemSim_1.99.4.zip
StartedAt: 2016-09-19 20:33:44 -0700 (Mon, 19 Sep 2016)
EndedAt: 2016-09-19 20:34:43 -0700 (Mon, 19 Sep 2016)
EllapsedTime: 58.5 seconds
RetCode: 0
Status:  OK  

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf GOSemSim.buildbin-libdir && mkdir GOSemSim.buildbin-libdir  && C:\cygwin\bin\curl.exe -O http://zin1/BBS/3.4/bioc/src/contrib/GOSemSim_1.99.4.tar.gz && D:\biocbld\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL --build --library=GOSemSim.buildbin-libdir --merge-multiarch GOSemSim_1.99.4.tar.gz && D:\biocbld\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL GOSemSim_1.99.4.zip  && rm GOSemSim_1.99.4.tar.gz GOSemSim_1.99.4.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  532k  100  532k    0     0  23.3M      0 --:--:-- --:--:-- --:--:-- 28.8M

install for i386

* installing *source* package 'GOSemSim' ...
** 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 ICmethod.cpp -o ICmethod.o
ICmethod.cpp: In function 'Rcpp::NumericMatrix infoContentMethod_cpp(Rcpp::StringVector&, Rcpp::StringVector&, Rcpp::List&, Rcpp::NumericVector&, const string&, const string&)':
ICmethod.cpp:82:29: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for (std::size_t i=0; i < ic_.size(); i++ ) {
                             ^
ICmethod.cpp:88:29: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for (std::size_t i=0; i < ic_.size(); i++ ) {
                             ^
ICmethod.cpp:107:29: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for (std::size_t i=0; i < anc_.size(); i++ ) {
                             ^
ICmethod.cpp:118:30: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for ( std::size_t i = 0; i < id1_.size(); i++ ) {
                              ^
ICmethod.cpp:125:34: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for ( std::size_t j = 0; j < id2_.size(); j++ ) {
                                  ^
ICmethod.cpp:152:34: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for ( std::size_t j = 0; j < id2_.size(); j++ ) {
                                  ^
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++ -shared -s -static-libgcc -o GOSemSim.dll tmp.def ICmethod.o RcppExports.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/GOSemSim.buildbin-libdir/GOSemSim/libs/i386
** R
** data
** inst
** byte-compile and prepare 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 'GOSemSim' ...
** 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 ICmethod.cpp -o ICmethod.o
ICmethod.cpp: In function 'Rcpp::NumericMatrix infoContentMethod_cpp(Rcpp::StringVector&, Rcpp::StringVector&, Rcpp::List&, Rcpp::NumericVector&, const string&, const string&)':
ICmethod.cpp:82:29: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for (std::size_t i=0; i < ic_.size(); i++ ) {
                             ^
ICmethod.cpp:88:29: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for (std::size_t i=0; i < ic_.size(); i++ ) {
                             ^
ICmethod.cpp:107:29: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for (std::size_t i=0; i < anc_.size(); i++ ) {
                             ^
ICmethod.cpp:118:30: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for ( std::size_t i = 0; i < id1_.size(); i++ ) {
                              ^
ICmethod.cpp:125:34: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for ( std::size_t j = 0; j < id2_.size(); j++ ) {
                                  ^
ICmethod.cpp:152:34: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
       for ( std::size_t j = 0; j < id2_.size(); j++ ) {
                                  ^
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++ -shared -s -static-libgcc -o GOSemSim.dll tmp.def ICmethod.o RcppExports.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/GOSemSim.buildbin-libdir/GOSemSim/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'GOSemSim' as GOSemSim_1.99.4.zip
* DONE (GOSemSim)
* installing to library 'D:/biocbld/bbs-3.4-bioc/R/library'
package 'GOSemSim' successfully unpacked and MD5 sums checked