Back to Multiple platform build/check report for BioC 3.9
ABCDEFGHIJKLMNOPQRS[T]UVWXYZ

BUILD BIN report for ternarynet on celaya2

This page was generated on 2019-10-16 12:49:52 -0400 (Wed, 16 Oct 2019).

Package 1638/1741HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
ternarynet 1.28.0
Matthew N. McCall
Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019)
URL: https://git.bioconductor.org/packages/ternarynet
Branch: RELEASE_3_9
Last Commit: a143517
Last Changed Date: 2019-05-02 11:53:34 -0400 (Thu, 02 May 2019)
malbec2 Linux (Ubuntu 18.04.2 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
celaya2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK [ OK ]UNNEEDED, same version exists in internal repository

Summary

Package: ternarynet
Version: 1.28.0
Command: rm -rf ternarynet.buildbin-libdir && mkdir ternarynet.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh ternarynet_1.28.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R ternarynet.buildbin-libdir
StartedAt: 2019-10-16 09:31:35 -0400 (Wed, 16 Oct 2019)
EndedAt: 2019-10-16 09:31:58 -0400 (Wed, 16 Oct 2019)
EllapsedTime: 22.8 seconds
RetCode: 0
Status:  OK 
PackageFile: ternarynet_1.28.0.tgz
PackageFileSize: 354.2 KiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf ternarynet.buildbin-libdir && mkdir ternarynet.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh ternarynet_1.28.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R ternarynet.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=ternarynet.buildbin-libdir ternarynet_1.28.0.tar.gz'
>>>>>>> 

* installing *source* package ‘ternarynet’ ...
** using staged installation
** libs
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include  -fPIC  -Wall -g -O2  -c tnetfit.cc -o tnetfit.o
tnetfit.cc:73:39: warning: unused variable 'tempi' [-Wunused-variable]
    int nOutcomes=3, l0, stage_count, tempi, jtrans, nTransition;
                                      ^
1 warning generated.
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include  -fPIC  -Wall -g -O2  -c tnetfuncs.cc -o tnetfuncs.o
tnetfuncs.cc:427:5: warning: unused variable 'tableWidth' [-Wunused-variable]
int tableWidth = powi(nOutcomes,maxDegree);
    ^
tnetfuncs.cc:435:5: warning: unused variable 'ipause' [-Wunused-variable]
int ipause;
    ^
tnetfuncs.cc:521:16: warning: unused variable 'i' [-Wunused-variable]
        int m1, m2, i;
                    ^
tnetfuncs.cc:517:6: warning: unused variable 'ipause' [-Wunused-variable]
        int ipause; 
            ^
4 warnings generated.
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include  -fPIC  -Wall -g -O2  -c tnetpost.cc -o tnetpost.o
tnetpost.cc:25:9: warning: unused variable 'ipause' [-Wunused-variable]
    int ipause;
        ^
tnetpost.cc:30:41: warning: unused variable 'nTransition' [-Wunused-variable]
    int l0, stage_count, tempi, jtrans, nTransition;
                                        ^
tnetpost.cc:30:33: warning: unused variable 'jtrans' [-Wunused-variable]
    int l0, stage_count, tempi, jtrans, nTransition;
                                ^
tnetpost.cc:30:26: warning: unused variable 'tempi' [-Wunused-variable]
    int l0, stage_count, tempi, jtrans, nTransition;
                         ^
tnetpost.cc:27:9: warning: unused variable 'm0fit' [-Wunused-variable]
    int m0fit;
        ^
tnetpost.cc:30:13: warning: unused variable 'stage_count' [-Wunused-variable]
    int l0, stage_count, tempi, jtrans, nTransition;
            ^
tnetpost.cc:30:9: warning: unused variable 'l0' [-Wunused-variable]
    int l0, stage_count, tempi, jtrans, nTransition;
        ^
tnetpost.cc:28:42: warning: unused variable 'finalScore' [-Wunused-variable]
    double newScore, oldScore, minScore, finalScore;
                                         ^
8 warnings generated.
clang++ -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o ternarynet.so tnetfit.o tnetfuncs.o tnetpost.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.9-bioc/meat/ternarynet.buildbin-libdir/00LOCK-ternarynet/00new/ternarynet/libs
** R
** 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 from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (ternarynet)


>>>>>>> 
>>>>>>> FIXING LINKS FOR ternarynet.buildbin-libdir/ternarynet/libs//ternarynet.so
>>>>>>> 

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libgcc_s.1.dylib" "ternarynet.buildbin-libdir/ternarynet/libs//ternarynet.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libgfortran.3.dylib" "ternarynet.buildbin-libdir/ternarynet/libs//ternarynet.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libreadline.5.2.dylib" "ternarynet.buildbin-libdir/ternarynet/libs//ternarynet.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libreadline.dylib" "ternarynet.buildbin-libdir/ternarynet/libs//ternarynet.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libquadmath.0.dylib" "ternarynet.buildbin-libdir/ternarynet/libs//ternarynet.so"