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BioC 3.1: INSTALL report for ChemmineR on moscato2

This page was generated on 2015-10-09 09:28:23 -0700 (Fri, 09 Oct 2015).

Package 154/1024HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
ChemmineR 2.20.4
Thomas Girke
Snapshot Date: 2015-10-08 17:20:21 -0700 (Thu, 08 Oct 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_1/madman/Rpacks/ChemmineR
Last Changed Rev: 108424 / Revision: 109384
Last Changed Date: 2015-09-10 12:42:08 -0700 (Thu, 10 Sep 2015)
zin2 Linux (Ubuntu 14.04.2 LTS) / x86_64  OK  OK  WARNINGS UNNEEDED, same version exists in internal repository
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 [ OK ] OK  WARNINGS  OK UNNEEDED, same version exists in internal repository
petty Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  WARNINGS  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: ChemmineR
Version: 2.20.4
Command: C:\cygwin\bin\curl.exe -O http://zin2/BBS/3.1/bioc/src/contrib/ChemmineR_2.20.4.tar.gz && E:\biocbld\bbs-3.1-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch ChemmineR_2.20.4.tar.gz && rm ChemmineR_2.20.4.tar.gz
StartedAt: 2015-10-08 18:53:31 -0700 (Thu, 08 Oct 2015)
EndedAt: 2015-10-08 18:56:40 -0700 (Thu, 08 Oct 2015)
EllapsedTime: 188.5 seconds
RetCode: 0
Status:  OK  

Command output

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://zin2/BBS/3.1/bioc/src/contrib/ChemmineR_2.20.4.tar.gz && E:\biocbld\bbs-3.1-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch ChemmineR_2.20.4.tar.gz && rm ChemmineR_2.20.4.tar.gz
###
##############################################################################
##############################################################################




install for i386

* installing to library 'E:/biocbld/bbs-3.1-bioc/R/library'
* installing *source* package 'ChemmineR' ...
** libs
g++ -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG    -I"E:/biocbld/bbs-3.1-bioc/R/library/Rcpp/include" -I"E:/biocbld/bbs-3.1-bioc/R/library/BH/include" -I"d:/RCompile/r-compiling/local/local320/include"  -DNO_MAIN -DNO_DEBUG   -O2 -Wall  -mtune=core2 -c DisjointSets.cpp -o DisjointSets.o
g++ -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG    -I"E:/biocbld/bbs-3.1-bioc/R/library/Rcpp/include" -I"E:/biocbld/bbs-3.1-bioc/R/library/BH/include" -I"d:/RCompile/r-compiling/local/local320/include"  -DNO_MAIN -DNO_DEBUG   -O2 -Wall  -mtune=core2 -c cluster.cc -o cluster.o
cluster.cc: In function 'int nbr_intersect(std::vector<int>&, std::vector<int>&)':
cluster.cc:118:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
cluster.cc:118:45: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
cluster.cc: In function 'int contains(int, std::vector<int>&)':
cluster.cc:131:29: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
cluster.cc: In function 'DisjointSets cluster(int, int, int, int)':
cluster.cc:267:40: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
cluster.cc: In function 'void loadNNMatrix(int, int, int, SEXP)':
cluster.cc:284:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
cluster.cc:298:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
cluster.cc: In function 'void loadNNList(int, int, SEXP)':
cluster.cc:314:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
cluster.cc:332:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
cluster.cc: In function 'SEXPREC* jarvis_patrick(SEXP, SEXP, SEXP, SEXP, SEXP)':
cluster.cc:390:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
cluster.cc: At global scope:
cluster.cc:49:13: warning: 'void prepare_neighbors(const char*, int, int)' defined but not used [-Wunused-function]
g++ -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG    -I"E:/biocbld/bbs-3.1-bioc/R/library/Rcpp/include" -I"E:/biocbld/bbs-3.1-bioc/R/library/BH/include" -I"d:/RCompile/r-compiling/local/local320/include"  -DNO_MAIN -DNO_DEBUG   -O2 -Wall  -mtune=core2 -c cstrsplit.cc -o cstrsplit.o
g++ -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG    -I"E:/biocbld/bbs-3.1-bioc/R/library/Rcpp/include" -I"E:/biocbld/bbs-3.1-bioc/R/library/BH/include" -I"d:/RCompile/r-compiling/local/local320/include"  -DNO_MAIN -DNO_DEBUG   -O2 -Wall  -mtune=core2 -c desc.cc -o desc.o
desc.cc: In function 'SEXPREC* genAPDescriptor(SEXP)':
desc.cc:249:30: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
g++ -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG    -I"E:/biocbld/bbs-3.1-bioc/R/library/Rcpp/include" -I"E:/biocbld/bbs-3.1-bioc/R/library/BH/include" -I"d:/RCompile/r-compiling/local/local320/include"  -DNO_MAIN -DNO_DEBUG   -O2 -Wall  -mtune=core2 -c fingerprints.cc -o fingerprints.o
fingerprints.cc: In function 'SEXPREC* uniquifyAtomPairs(SEXP)':
fingerprints.cc:138:28: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
fingerprints.cc:145:28: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
fingerprints.cc:158:28: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
g++ -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG    -I"E:/biocbld/bbs-3.1-bioc/R/library/Rcpp/include" -I"E:/biocbld/bbs-3.1-bioc/R/library/BH/include" -I"d:/RCompile/r-compiling/local/local320/include"  -DNO_MAIN -DNO_DEBUG   -O2 -Wall  -mtune=core2 -c formats.cc -o formats.o
g++ -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG    -I"E:/biocbld/bbs-3.1-bioc/R/library/Rcpp/include" -I"E:/biocbld/bbs-3.1-bioc/R/library/BH/include" -I"d:/RCompile/r-compiling/local/local320/include"  -DNO_MAIN -DNO_DEBUG   -O2 -Wall  -mtune=core2 -c molecule.cc -o molecule.o
g++ -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG    -I"E:/biocbld/bbs-3.1-bioc/R/library/Rcpp/include" -I"E:/biocbld/bbs-3.1-bioc/R/library/BH/include" -I"d:/RCompile/r-compiling/local/local320/include"  -DNO_MAIN -DNO_DEBUG   -O2 -Wall  -mtune=core2 -c r_wrap.cc -o r_wrap.o
r_wrap.cc: In function 'SEXPREC* SWIG_MakePtr(void*, const char*, R_SWIG_Owner)':
r_wrap.cc:949:15: warning: variable 'p' set but not used [-Wunused-but-set-variable]
g++ -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG    -I"E:/biocbld/bbs-3.1-bioc/R/library/Rcpp/include" -I"E:/biocbld/bbs-3.1-bioc/R/library/BH/include" -I"d:/RCompile/r-compiling/local/local320/include"  -DNO_MAIN -DNO_DEBUG   -O2 -Wall  -mtune=core2 -c script.cc -o script.o
desc.h:39:13: warning: 'elements' defined but not used [-Wunused-variable]
g++ -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG    -I"E:/biocbld/bbs-3.1-bioc/R/library/Rcpp/include" -I"E:/biocbld/bbs-3.1-bioc/R/library/BH/include" -I"d:/RCompile/r-compiling/local/local320/include"  -DNO_MAIN -DNO_DEBUG   -O2 -Wall  -mtune=core2 -c similarity.cc -o similarity.o
desc.h:39:13: warning: 'elements' defined but not used [-Wunused-variable]
g++ -m32 -shared -s -static-libgcc -o ChemmineR.dll tmp.def DisjointSets.o cluster.o cstrsplit.o desc.o fingerprints.o formats.o molecule.o r_wrap.o script.o similarity.o -Ld:/RCompile/r-compiling/local/local320/lib/i386 -Ld:/RCompile/r-compiling/local/local320/lib -LE:/biocbld/BBS-3˜1.1-B/R/bin/i386 -lR
installing to E:/biocbld/bbs-3.1-bioc/R/library/ChemmineR/libs/i386
** R
** data
** inst
** preparing package for lazy loading
Creating a generic function for 'as.vector' from package 'base' in package 'ChemmineR'
Creating a generic function for 'as.matrix' from package 'base' in package 'ChemmineR'
Creating a generic function for 'plot' from package 'graphics' in package 'ChemmineR'
Creating a generic function for 'print' from package 'base' in package 'ChemmineR'
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded

install for x64

* installing to library 'E:/biocbld/bbs-3.1-bioc/R/library'
* installing *source* package 'ChemmineR' ...
** libs
g++ -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG    -I"E:/biocbld/bbs-3.1-bioc/R/library/Rcpp/include" -I"E:/biocbld/bbs-3.1-bioc/R/library/BH/include" -I"d:/RCompile/r-compiling/local/local320/include"  -DNO_MAIN -DNO_DEBUG   -O2 -Wall  -mtune=core2 -c DisjointSets.cpp -o DisjointSets.o
g++ -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG    -I"E:/biocbld/bbs-3.1-bioc/R/library/Rcpp/include" -I"E:/biocbld/bbs-3.1-bioc/R/library/BH/include" -I"d:/RCompile/r-compiling/local/local320/include"  -DNO_MAIN -DNO_DEBUG   -O2 -Wall  -mtune=core2 -c cluster.cc -o cluster.o
cluster.cc: In function 'int nbr_intersect(std::vector<int>&, std::vector<int>&)':
cluster.cc:118:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
cluster.cc:118:45: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
cluster.cc: In function 'int contains(int, std::vector<int>&)':
cluster.cc:131:29: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
cluster.cc: In function 'DisjointSets cluster(int, int, int, int)':
cluster.cc:267:40: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
cluster.cc: In function 'void loadNNMatrix(int, int, int, SEXP)':
cluster.cc:284:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
cluster.cc:298:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
cluster.cc: In function 'void loadNNList(int, int, SEXP)':
cluster.cc:314:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
cluster.cc:332:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
cluster.cc: In function 'SEXPREC* jarvis_patrick(SEXP, SEXP, SEXP, SEXP, SEXP)':
cluster.cc:390:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
cluster.cc: At global scope:
cluster.cc:49:13: warning: 'void prepare_neighbors(const char*, int, int)' defined but not used [-Wunused-function]
g++ -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG    -I"E:/biocbld/bbs-3.1-bioc/R/library/Rcpp/include" -I"E:/biocbld/bbs-3.1-bioc/R/library/BH/include" -I"d:/RCompile/r-compiling/local/local320/include"  -DNO_MAIN -DNO_DEBUG   -O2 -Wall  -mtune=core2 -c cstrsplit.cc -o cstrsplit.o
g++ -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG    -I"E:/biocbld/bbs-3.1-bioc/R/library/Rcpp/include" -I"E:/biocbld/bbs-3.1-bioc/R/library/BH/include" -I"d:/RCompile/r-compiling/local/local320/include"  -DNO_MAIN -DNO_DEBUG   -O2 -Wall  -mtune=core2 -c desc.cc -o desc.o
desc.cc: In function 'SEXPREC* genAPDescriptor(SEXP)':
desc.cc:249:30: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
g++ -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG    -I"E:/biocbld/bbs-3.1-bioc/R/library/Rcpp/include" -I"E:/biocbld/bbs-3.1-bioc/R/library/BH/include" -I"d:/RCompile/r-compiling/local/local320/include"  -DNO_MAIN -DNO_DEBUG   -O2 -Wall  -mtune=core2 -c fingerprints.cc -o fingerprints.o
fingerprints.cc: In function 'SEXPREC* uniquifyAtomPairs(SEXP)':
fingerprints.cc:138:28: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
fingerprints.cc:145:28: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
fingerprints.cc:158:28: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
g++ -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG    -I"E:/biocbld/bbs-3.1-bioc/R/library/Rcpp/include" -I"E:/biocbld/bbs-3.1-bioc/R/library/BH/include" -I"d:/RCompile/r-compiling/local/local320/include"  -DNO_MAIN -DNO_DEBUG   -O2 -Wall  -mtune=core2 -c formats.cc -o formats.o
g++ -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG    -I"E:/biocbld/bbs-3.1-bioc/R/library/Rcpp/include" -I"E:/biocbld/bbs-3.1-bioc/R/library/BH/include" -I"d:/RCompile/r-compiling/local/local320/include"  -DNO_MAIN -DNO_DEBUG   -O2 -Wall  -mtune=core2 -c molecule.cc -o molecule.o
g++ -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG    -I"E:/biocbld/bbs-3.1-bioc/R/library/Rcpp/include" -I"E:/biocbld/bbs-3.1-bioc/R/library/BH/include" -I"d:/RCompile/r-compiling/local/local320/include"  -DNO_MAIN -DNO_DEBUG   -O2 -Wall  -mtune=core2 -c r_wrap.cc -o r_wrap.o
r_wrap.cc: In function 'SEXPREC* SWIG_MakePtr(void*, const char*, R_SWIG_Owner)':
r_wrap.cc:949:15: warning: variable 'p' set but not used [-Wunused-but-set-variable]
g++ -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG    -I"E:/biocbld/bbs-3.1-bioc/R/library/Rcpp/include" -I"E:/biocbld/bbs-3.1-bioc/R/library/BH/include" -I"d:/RCompile/r-compiling/local/local320/include"  -DNO_MAIN -DNO_DEBUG   -O2 -Wall  -mtune=core2 -c script.cc -o script.o
desc.h:39:13: warning: 'elements' defined but not used [-Wunused-variable]
g++ -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG    -I"E:/biocbld/bbs-3.1-bioc/R/library/Rcpp/include" -I"E:/biocbld/bbs-3.1-bioc/R/library/BH/include" -I"d:/RCompile/r-compiling/local/local320/include"  -DNO_MAIN -DNO_DEBUG   -O2 -Wall  -mtune=core2 -c similarity.cc -o similarity.o
desc.h:39:13: warning: 'elements' defined but not used [-Wunused-variable]
g++ -m64 -shared -s -static-libgcc -o ChemmineR.dll tmp.def DisjointSets.o cluster.o cstrsplit.o desc.o fingerprints.o formats.o molecule.o r_wrap.o script.o similarity.o -Ld:/RCompile/r-compiling/local/local320/lib/x64 -Ld:/RCompile/r-compiling/local/local320/lib -LE:/biocbld/BBS-3˜1.1-B/R/bin/x64 -lR
installing to E:/biocbld/bbs-3.1-bioc/R/library/ChemmineR/libs/x64
** testing if installed package can be loaded
* DONE (ChemmineR)