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BioC 3.5: INSTALL report for ChemmineOB on malbec2

This page was generated on 2017-10-18 14:15:25 -0400 (Wed, 18 Oct 2017).

Package 200/1381HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
ChemmineOB 1.14.0
Thomas Girke
Snapshot Date: 2017-10-17 17:00:52 -0400 (Tue, 17 Oct 2017)
URL: https://git.bioconductor.org/packages/ChemmineOB
Branch: RELEASE_3_5
Last Commit: 09ef3ec
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  WARNINGS UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository
veracruz2 OS X 10.11.6 El Capitan / x86_64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository

Summary

Package: ChemmineOB
Version: 1.14.0
Command: /home/biocbuild/bbs-3.5-bioc/R/bin/R CMD INSTALL ChemmineOB
StartedAt: 2017-10-17 18:01:47 -0400 (Tue, 17 Oct 2017)
EndedAt: 2017-10-17 18:02:51 -0400 (Tue, 17 Oct 2017)
EllapsedTime: 63.8 seconds
RetCode: 0
Status:  OK 

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.5-bioc/R/bin/R CMD INSTALL ChemmineOB
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.5-bioc/R/library’
* installing *source* package ‘ChemmineOB’ ...
checking for pkg-config... /usr/bin/pkg-config
checking pkg-config is at least version 0.9.0... yes
checking for OPENBABEL... yes
checking for OPENBABEL... yes
checking for gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables... 
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking how to run the C preprocessor... gcc -E
configure: creating ./config.status
config.status: creating src/Makevars
** libs
g++  -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG  -I"/home/biocbuild/bbs-3.5-bioc/R/library/BH/include" -I"/home/biocbuild/bbs-3.5-bioc/R/library/Rcpp/include" -I/usr/local/include  -I/usr/include/openbabel-2.0  -I/usr/include/eigen3  -DUSE_BOOST -fpic  -g -O2  -Wall -c ChemmineOB.cpp -o ChemmineOB.o
ChemmineOB.cpp: In function ‘SEXPREC* SWIG_MakePtr(void*, const char*, R_SWIG_Owner)’:
ChemmineOB.cpp:953:15: warning: variable ‘p’ set but not used [-Wunused-but-set-variable]
   const char *p = typeName;
               ^
g++  -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG  -I"/home/biocbuild/bbs-3.5-bioc/R/library/BH/include" -I"/home/biocbuild/bbs-3.5-bioc/R/library/Rcpp/include" -I/usr/local/include  -I/usr/include/openbabel-2.0  -I/usr/include/eigen3  -DUSE_BOOST -fpic  -g -O2  -Wall -c canonical.cpp -o canonical.o
g++ -shared -L/home/biocbuild/bbs-3.5-bioc/R/lib -L/usr/local/lib -o ChemmineOB.so ChemmineOB.o canonical.o -lopenbabel -L/home/biocbuild/bbs-3.5-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.5-bioc/R/library/ChemmineOB/libs
** R
** inst
** preparing package for lazy loading
in method for ‘copyToR’ with signature ‘"_p_std::pair<(unsigned int,unsigned int)>"’: no definition for class “_p_std::pair<(unsigned int,unsigned int)>”
in method for ‘copyToR’ with signature ‘"_p_OpenBabel::DoubleType"’: no definition for class “_p_OpenBabel::DoubleType”
in method for ‘copyToR’ with signature ‘"_p_OpenBabel::CharPtrLess"’: no definition for class “_p_OpenBabel::CharPtrLess”
in method for ‘copyToR’ with signature ‘"_p_OpenBabel::FptIndexHeader"’: no definition for class “_p_OpenBabel::FptIndexHeader”
in method for ‘copyToR’ with signature ‘"_p_OpenBabel::LineSearchType"’: no definition for class “_p_OpenBabel::LineSearchType”
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (ChemmineOB)